Compositions and methods for producing bioactive fusion proteins

ABSTRACT

Disclosed is a composition of matter involving a recombinant fusion protein comprising a a pharmacologically active protein partner, and a small pharmacologically inactive protein domain partner of human origin, such as but not limited to, a 10 th  fibronectin III domain, a SH3 domain, a SH2 domain, a CH2 domain of IgG1, a PDZ domain, a thrombospondin repeat domain, an ubiquitin domain, a leucine-rich repeat domain, a villin headpiece HP35 domain, a villin headpiece HP76 domain, or a fragment or modification of any of these. Also disclosed are nucleic acids (e.g., DNA constructs) encoding the fusion protein, expression vectors and recombinant host cells for expression of the fusion protein, and pharmaceutical compositions containing the recombinant fusion protein and a pharmaceutically acceptable carrier, and method of producing a pharmacologically active recombinant fusion protein.

This application is a division of U.S. Nonprovisional application Ser.No. 12/154,507, filed May 22, 2008, which claims the benefit of U.S.Provisional Application No. 60/931,344, filed May 22, 2007, both ofwhich are hereby incorporated by reference in their entireties.

The instant application contains an ASCII “txt” compliant sequencelisting submitted via EFS-WEB on Apr. 11, 2013, which serves as both thecomputer readable form (CRF) and the paper copy required by 37 C.F.R.Section 1.821(c) and 1.821(e), and is hereby incorporated by referencein its entirety. The name of the “txt” file created on Apr. 9, 2013, is:A-1267-US-DIV-SeqListOffOfNPdtd052208ST25.txt, and is 105 kb in size.

Throughout this application various publications are referenced withinparentheses or brackets. The disclosures of these publications in theirentireties are hereby incorporated by reference in this application inorder to more fully describe the state of the art to which thisinvention pertains.

BACKGROUND OF THE INVENTION

1. Field of Art

The present invention relates to the biochemical arts, particularly torecombinant expression of polypeptides.

2. Discussion of Related Art

Bioactive or therapeutic peptides can be potent drugs which specificallytarget and modulate unique signaling and metabolic pathways. Theirrelatively small size and simple composition makes these peptidesamenable to molecular engineering to refine and enhance desirableactivities. Subtle changes to the peptide sequence can discriminatebetween linked activities or help prevent degradation in vivo.Similarly, well placed linker sites can permit conjugation of largemolecules, such as poly(ethylene glycol) PEG, to enhance circulatinghalf-lives. However, these same properties also present specialchallenges to peptide production and delivery.

Artificial synthetic techniques are not cost-effective for producingmany peptides, particularly the larger peptides (15-40 amino acidresidues or more). As an alternative, the use of recombinant host cellsis well known for recombinant production of bioactive peptides orproteins. Commonly used recombinant host cells include bacteria (such asE. coli sp.), yeast (such as Saccharomyces sp.) and other fungi, insectcells, plant cells, and mammalian cells in culture. However, recombinantexpression is often difficult. One reason for the low expression ofrecombinant peptides or proteins is likely due to their poor refoldingpotential, owing to marginally stable secondary and tertiary structuresin solution.

To overcome this, many peptides have been expressed as chimeric fusionswith proteins such as immunoglobulin Fc domains, ubiquitin, an albumin(e.g., human serum albumin (HSA)), a transthyretin (TTR), or athyroxine-binding globulin (TBG). (See, e.g., Sullivan et al., ToxinPeptide therapeutic agents, WO 2006/116156 A2; Gegg et al., Modified Fcmolecules, WO 2006/036834 A2; Gegg et al., Modified Fc molecules,PCT/US2006/031609; Feige et al., Modified peptides as therapeuticagents, WO 2000/024782; Rosen et al., Albumin fusion proteins, U.S. Pat.No. 6,926,898 and US 2005/0054051; Bridon et al., Protection ofendogenous therapeutic peptides from peptidase activity throughconjugation to blood components, U.S. Pat. No. 6,887,470); Walker etal., Use of transthyretin peptide/protein fusions to increase the serumhalf-life of pharmacologically active peptides/proteins, US 2003/0195154A1; 2003/0191056 A1). Such large fusion proteins have made possible thecommercial expression of therapeutic peptides and provided the addedadvantage of dramatically extending the circulating half-lives of theirpeptide partners, thereby rendering them more efficacious in vivo.

While these fusion proteins often facilitate peptide expression at muchhigher levels, they can also present difficult refolding challenges thatcan affect their bioactivity. Protein recovery can be furthercomplicated by undesirable domain-domain interactions between the fusionpartners and disulphide bond isomerizations. In addition, the cost ofproducing a fusion protein with a large protein carrier moiety canaffect the commercial viability of such a therapeutic agent.

Consequently, compositions and methods for high yield recombinantexpression of bioactive fusion proteins with a relatively low mass ratioof carrier component to bioactive component are desirable. These andother benefits are provided by the present invention.

SUMMARY OF THE INVENTION

The present invention relates to compositions of matter involvingrecombinant fusion proteins. The inventive recombinant fusion proteinincludes: (a) a small pharmacologically inactive protein domain of humanorigin as described herein; and (b) a pharmacologically active protein.The present invention is also directed to nucleic acids (e.g., DNAconstructs) encoding the fusion protein, and expression vectors andrecombinant host cells for expression of the fusion protein.

Optionally, for modulation of the pharmacokinetic profile of theinventive recombinant fusion protein molecule to fit a particulartherapeutic need by attaching or conjugating covalently one or morehalf-life extending moieties of various masses and configurations to thefusion protein. Thus, the invention encompasses a composition of matterof the formula:

(F¹)_(a)—(X²)_(b)  (I)

and multimers thereof, wherein:

F¹ is a half-life extending moiety, a is 0 or 1, and b is 1;

X² is D-(L)_(c)-(P⁵)_(d)—(X³)_(e), (X⁴)_(f)—(P⁵)_(d)-(L)_(c)-D, or(X⁴)_(f)—(P⁵)_(d)-(L)_(c)D-(L)_(g)-(P⁶)_(h)—(X³)₁, wherein c and g areeach independently 0 or 1, d and h are 1, and e, f, and i are eachindependently is 0, 1, 2, 3, or 4;

X³ is -(L)_(j)-(P⁷), j is 0 or 1;

X⁴ is (P⁸)-(L)_(k)-, k is 0 or 1;

D is small pharmacologically inactive protein domain of human origin;

P⁵, P⁶, P⁷ and P⁸ are each independently a pharmacologically activeprotein; and

L is in each instance a peptidyl linker. Within the meaning of FormulaI, the pharmaceutically active protein, “P” (i.e., P⁵, P⁶, P⁷ and P⁸),if more than one is present, can be independently the same or differentfrom, any other P also present in the inventive composition; thisincludes a P⁷ and/or a P⁸, if more than one is present, which can be thesame or different from any other P⁷ and/or P⁸. Similarly, the peptidyllinker moiety, “L” (i.e., (L)_(c), (L)_(g), (L)_(j), and/or (L)_(k)), ifpresent, can be independently the same or different from any otherlinker, or linkers, that may be present in the inventive composition.

The present invention also provides a high efficiency method ofproducing a pharmacologically active fusion protein in a host cell. Therecombinant host cell of the invention is placed in a growth mediumunder physiologically suitable conditions such that the recombinantfusion protein is expressed; and the fusion protein is then isolated orpurified from the cells. This can involve separation from the cell byconventional biochemical techniques involving cell lysis and separationof the fusion protein from the cell extract. It may involvesolubilization of the fusion protein released from inclusion bodies,after refolding, if necessary. Alternatively, if expression of thefusion protein involves its secretion from the recombinant host cell,isolating the fusion protein from the cell can simply be accomplishedwith centrifugation or filtration to separate the cells from the mediumcontaining the secreted fusion protein, without lysing the cells, therecombinant fusion protein being in the supernatant or filtrate growthmedium.

Typically, the method does not require post-expression cleavage of thepharmacologically active protein component from the smallpharmacologically inactive protein domain in order to use the inventiverecombinant fusion protein as a therapeutic, since the smallpharmacologically inactive protein domain component has a human aminoacid sequence posing a low immunogenic risk to a human patient to whomthe therapeutic is administered. The present invention provides a usefulalternative to the costly in vitro syntheses of large therapeuticpeptides or proteins.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG. 1 shows a tree diagram that illustrates the amino acid sequencerelatedness of various human PDZ domains that were identified in theBrookhaven Protein Databank. The four digit code is the accession numberfrom the Brookhaven Protein Databank. Alignment was completed usingVector NTI Align-X.

FIG. 2 shows a tree diagram that illustrates the amino acid sequencerelatedness of various human SH3 domains that were identified in theBrookhaven Protein Databank. The four digit code is the accession numberfrom the Brookhaven Protein Databank. Alignment was completed usingVector NTI Align-X.

FIG. 3 shows a tree diagram that illustrates the amino acid sequencerelatedness of various human SH2 domains that were identified in theBrookhaven Protein Databank. The four digit code is the accession numberfrom the Brookhaven Protein Databank. Alignment was completed usingVector NTI Align-X.

FIG. 4A illustrates the expression of various ShK (actually[desArg1]ShK) and OSK1 fusions with a Coomassie stained 18% Tris-GlycineSDS-PAGE. Lane contents were (left to right): Invitrogen Benchmarkstandards, uninduced lysate, 1N7F-OsK1, 1N7F-ShK, 1UEZ-OsK1, 1UEZ-ShK,1WA7-OsK1, 1WA7-ShK, 1X2K-OsK1, 1X2K-ShK. Preparation of samples forelectrophoresis involved measuring OD₆₀₀ of the cell culture,centrifugation of the cells, and resuspension in sufficient PBS(Dulbecco's Phosphate Buffered Saline (1×) (-Calcium Chloride,-Magnesium Chloride); GIBCO) to make a 10 OD₆₀₀/mL mixture. 15 μL ofthat was combined with 20 μL of loading buffer (80% Tris-Glycine SDSSample Buffer (2×) [Novex] 20% β-mercaptoethanol), which was then heatedat 99° C. for 5 minutes. Aliquots (10 μL) of this heated sample materialwere then loaded into the wells of the gel.

FIG. 4B illustrates the expression of various OSK1 fusions with aCoomassie stained 18% Tris-Glycine SDS-PAGE. Lane contents were (left toright): Invitrogen Benchmark standards, uninduced lysate, FN3-OsK1,1WFV-OsK1, 1AB2-OsK1, 1JYQ-OsK1, 1PHT-OsK1. Preparation of samples forelectrophoresis was as described above for FIG. 4A.

FIG. 5A illustrates expression of TMP(22-7Q) fusions with a Coomassiestained 18% Tris-Glycine SDS-PAGE. Lane contents were (left to right):uninduced lysate, SH3 lysate I+6, SH3 insoluble I+6, SH3 soluble I+6,uninduced lysate, SH2 lysate I+6, SH2 insoluble I+6, SH2 soluble I+6,Invitrogen Benchmark standards. Preparation of samples forelectrophoresis involved measuring OD600 of the cell culture andcentrifugation of the cells to get a 1 mg pellet using the formula0.5291/OD. The pellet was resuspended in 50 μl of Tris-EDTA (pH 8.0)buffer and 50 μl of loading buffer (50% Tris-Glycine SDS Sample Buffer(2×) from Novex, 50% (3-mercaptoethanol), which was then heated at 99°C. for 10 minutes. Aliquots (20 μL) of this heated sample material werethen loaded into the wells of the gel.

FIG. 5B illustrates expression of TMP(22-7Q) fusions with a Coomassiestained 18% Tris-Glycine SDS-PAGE. Lane contents were (left to right):uninduced lysate, PDZ lysate I+6, PDZ insoluble I+6, PDZ soluble I+6,uninduced lysate, Fn3 lysate I+6, Fn3 insoluble I+6, Fn3 soluble I+6,Invitrogen Benchmark standards. Preparation of samples forelectrophoresis was as described above for FIG. 5A.

FIG. 6A-E illustrates shaker flask expression of small domain OsK1fusions with Coomassie stained 4-20% tris-glycine SDS-PAGE. Lanecontents in FIGS. 6A-C were (left to right): Novex Mark 12 standards,soluble fraction, deoxycholic acid wash, water wash, insoluble fraction,Novex Mark 12 standards, soluble fraction, deoxycholic acid wash, waterwash, and insoluble fraction. In FIG. 6A, in lanes 2-5, the small domainfused with OsK1 was PDZ(1WFV), i.e., construct encoded by SEQ ID NO:65;in lanes 7-10, the small domain fused with OsK1 was SH3(1X2K), i.e.,construct SEQ ID NO:84. In FIG. 6B, in lanes 2-5, the small domain fusedwith OsK1 was PDZ(1N7F), i.e., construct SEQ ID NO:83; in lanes 7-10,the small domain fused with OsK1 was PDZ(lUEZ), i.e., construct SEQ IDNO:85. In FIG. 6C, in lanes 2-5 and 7-10, the small domain fused withOsK1 was FnIII, i.e., construct SEQ ID NO:81. Lane contents in FIGS.6D-E were (left to right): Novex Mark 12 standards, soluble fraction,deoxycholic acid wash, water wash, and insoluble fraction. Preparationof samples for loading into wells for electrophoresis was as describedin Example 2 (protein purification section) herein, and the material foreach well was diluted with ½ volume of reducing 3×SDS-PAGE sample buffer(167 mM Tris pH 6.8, 26.7% glycerol, 5.3% SDS, and 13.3%2-mercaptoethanol); 2-1 μL aliquots of sample were loaded per well. InFIG. 6D, in lanes 2-5, the small domain fused with OsK1 was CH2, i.e.,construct SEQ ID NO:80. In FIG. 6E, in lanes 2-5, the small domain fusedwith OsK1 was SH3(1PHT), i.e., construct SEQ ID NO:82.

FIGS. 7A-F shows analytical SEC of various small domain OsK1 fusionsSE-HPLC of OsK1 fusion proteins after refolding and purification using aPhenomenex BioSep-SEC 3000 column with 50 mM NaH2PO4, 250 mM NaCl, pH6.9 as the running buffer observing the absorbence at 280 nm. In FIG.7A, the small domain fused with OsK1 was CH2, i.e., construct SEQ IDNO:80. In FIG. 7B, the small domain fused with OsK1 was SH3(1PHT), i.e.,construct SEQ ID NO:82. In FIG. 7C, the small domain fused with OsK1 wasFnIII, i.e., construct SEQ ID NO:81. In FIG. 7D, the small domain fusedwith OsK1 was PDZ(lUEZ), i.e., construct SEQ ID NO:85. In FIG. 7E, thesmall domain fused with OsK1 was PDZ(1N7F), i.e., construct SEQ IDNO:83. In FIG. 7F, the small domain fused with OsK1 was SH3(1X2K), i.e.,construct SEQ ID NO:84.

FIG. 8A-C illustrates product of the refolded and purified small domainOsK1 fusions with Coomassie stained 4-20% tris-glycine SDS-PAGE. Lanecontents in FIGS. 8A-C were (left to right): Novex Mark 12 standards,0.5 μg protein; blank, 2.0 μg protein; blank, 10 μg protein; Novex Mark12 standards, 0.5 μg protein; blank, 2.0 μg protein; blank, 10 μgprotein. In FIG. 8A, in lanes 2, 4, 6, the small domain fused with OsK1was FnIII), i.e., construct SEQ ID NO:81; in lanes 8, 10, 12, the smalldomain fused with OsK1 was SH3(1X2K), i.e., construct SEQ ID NO:84. InFIG. 8B, in lanes 2, 4, 6, the small domain fused with OsK1 wasPDZ(1UEZ), i.e., construct SEQ ID NO:85; in lanes 8, 10, 12, the smalldomain fused with OsK1 was PDZ(1N7F), i.e., construct SEQ ID NO:83. InFIG. 8C, in lanes 2, 4, 6, the small domain fused with OsK1 was CH2,i.e., construct SEQ ID NO:80; in lanes 8, 10, 12, the small domain fusedwith OsK1 was SH3(1PHT), i.e., construct SEQ ID NO:82.

FIG. 9A-E shows mass spectrometry of the refolded and purified smalldomain OsK1 fusions. In FIG. 9A, the small domain fused with OsK1 wasPDZ(lUEZ), i.e., construct SEQ ID NO:85. In FIG. 9B, the small domainfused with OsK1 was PDZ(1N7F), i.e., construct SEQ ID NO:83. In FIG. 9C,the small domain fused with OsK1 was FnIII, i.e., construct SEQ IDNO:81. In FIG. 9D, the small domain fused with OsK1 was CH2, i.e.,construct SEQ ID NO:80. In FIG. 9E, the small domain fused with OsK1 wasSH3(1PHT), i.e., construct SEQ ID NO:82.

FIG. 10 shows cation exchange purification of the 1UEZ-OsK1 fusionconstruct after PEGylation using SP-HP sepharose, a 20 mM sodium acetatebuffer pH 5.0, and a NaCl gradient from 0 to 1 M. The solid line tracesthe absorbance at 280 nm, while the broken line shows the conductivity.

FIG. 11A-B shows SDS-PAGE of Purified PEGylated fusion proteins. FIG.11A (left to right): lanes #1 and 7 were molecular weight (MW) markers;lanes #2, 3, 8 and 9 were non-reduced, and lanes #5, 6, 11 and 12 werereduced. Lanes #2 and 5 were unconjugated 1UEZ-OSK1 fusion protein andlanes #3 and 6 were the purified 20 kD PEG-1UEZ-OSK1 conjugate. Lanes #8and 11 were unconjugated 1N7F-OSK1 fusion protein and lanes #9 and 12were the purified 20 kD PEG-1N7F-OSK1 conjugate. FIG. 11B (left toright): Lanes #1 and 7 were MW markers. Lanes #2, 3, 8 and 9 werenon-reduced, and lanes #5, 6, 11 and 12 were reduced. Lanes #2 and 5were unconjugated Fn3-OSK1 fusion protein and lanes #3 and 6 were thepurified 20 kD PEG-Fn3-OSK1 conjugate. Lanes #8 and 11 were unconjugated1X2K-OSK1 fusion protein and lanes #8 and 12 were the purified 20 kDPEG-1X2K-OSK1 conjugate.

FIG. 12 illustrates the serum levels of the various OsK1 constructs 24hours post-i.v. injection (2 mg/kg) in mice, as determined by ELISAusing polyclonal rabbit anti-OsK1 antibodies for detection.

FIG. 13 shows an alignment of chicken (ch; SEQ ID NO:60) and human (hu;SEQ ID NO:61) HP-35 sequences. Numbering is based on intact villinheadpiece sequence: Leu42>>Phe76. Helical sequences are underlined basedon NMR structure.

FIG. 14 shows a chromatogram from Ni-NTA purification of PTH-HP76 fromE. coli lysate.

FIG. 15 shows a 4-20% SDS-PAGE gel of eluted peak fractions from Ni-NTAcolumn (FIG. 14). Boxed fractions were confirmed as PTH-HP76 by westernblot and were pooled.

FIG. 16 shows a chromatogram from cation exchange purification ofPEGylated PTH-HP76 using 1 ml SP Sepharose HP HiTrap column (GEHealthcare, Piscataway, N.J.).

FIG. 17 shows 4-20% SDS-PAGE gel of eluted peak fractions from SPSepharose column (FIG. 16). Boxed fractions representing purifiedPEG-PTH-HP76 were pooled.

FIG. 18 shows the results of murine in vivo bioassay of the PTH-HP76conjugates.

DETAILED DESCRIPTION

As used in this specification and the appended claims, the singularforms “a”, “an” and “the” include plural referents unless the contextclearly indicates otherwise. Thus, for example, reference to “a protein”includes a plurality of proteins; reference to “a cell” includespopulations of a plurality of cells.

“Polypeptide” and “protein” are used interchangeably herein and includea molecular chain of two or more amino acids linked covalently throughpeptide bonds. The terms do not refer to a specific length of theproduct. Thus, “peptides,” and “oligopeptides,” are included within thedefinition of polypeptide. The terms include post-translationalmodifications of the polypeptide, for example, glycosylations,acetylations, phosphorylations and the like. In addition, proteinfragments, analogs, mutated or variant proteins, fusion proteins and thelike are included within the meaning of polypeptide. The terms alsoinclude molecules in which one or more amino acid analogs ornon-canonical or unnatural amino acids are included as can be expressedrecombinantly using known protein engineering techniques. In addition,inventive fusion proteins can be derivatized as described herein bywell-known organic chemistry techniques.

The term “fusion protein” indicates that the protein includespolypeptide components derived from more than one parental protein orpolypeptide. Typically, a fusion protein is expressed from a fusion genein which a nucleotide sequence encoding a polypeptide sequence from oneprotein is appended in frame with, and optionally separated by a linkerfrom, a nucleotide sequence encoding a polypeptide sequence from adifferent protein. The fusion gene can then be expressed by arecombinant host cell as a single protein.

A “domain” of a protein is any portion of the entire protein, up to andincluding the complete protein, but typically comprising less than thecomplete protein. A domain can, but need not, fold independently of therest of the protein chain and/or be correlated with a particularbiological, biochemical, or structural function or location (e.g., aligand binding domain, or a cytosolic, transmembrane or extracellulardomain).

As used herein “soluble” when in reference to a protein produced byrecombinant DNA technology in a host cell is a protein that exists inaqueous solution; if the protein contains a twin-arginine signal aminoacid sequence the soluble protein is exported to the periplasmic spacein gram negative bacterial hosts, or is secreted into the culture mediumby eukaryotic host cells capable of secretion, or by bacterial hostpossessing the appropriate genes (e.g., the kil gene). Thus, a solubleprotein is a protein which is not found in an inclusion body inside thehost cell. Alternatively, depending on the context, a soluble protein isa protein which is not found integrated in cellular membranes; incontrast, an insoluble protein is one which exists in denatured forminside cytoplasmic granules (called an inclusion body) in the host cell,or again depending on the context, an insoluble protein is one which ispresent in cell membranes, including but not limited to, cytoplasmicmembranes, mitochondrial membranes, chloroplast membranes, endoplasmicreticulum membranes, etc.

A distinction is also drawn between proteins which are “soluble” (i.e.,dissolved or capable of being dissolved) in an aqueous solution devoidof significant amounts of ionic detergents (e.g., SDS) or denaturants(e.g., urea, guanidine hydrochloride) and proteins which exist as asuspension of insoluble protein molecules dispersed within the solution.A “soluble” protein will not be removed from a solution containing theprotein by centrifugation using conditions sufficient to remove cellspresent in a liquid medium (e.g., centrifugation at 5,000×g for 4-5minutes). In some embodiments of the inventive composition, therecombinant fusion protein is synthesized by the host cell andsegregated in an insoluble form within cellular inclusion bodies, whichcan then be purified from other cellular components in a cell extractwith relative ease, and the recombinant fusion protein can in turn besolubilized, refolded and/or further purified.

A distinction is drawn between a “soluble” protein (i.e., a proteinwhich when expressed in a host cell is produced in a soluble form) and a“solubilized” protein. An insoluble recombinant protein found inside aninclusion body or found integrated in a cell membrane may be solubilized(i.e., rendered into a soluble form) by treating purified inclusionbodies or cell membranes with denaturants such as guanidinehydrochloride, urea or sodium dodecyl sulfate (SDS). These denaturantsmust then be removed from the solubilized protein preparation to allowthe recovered protein to renature (refold). Although the inventivecompositions can be refolded in active form, not all proteins willrefold into an active conformation after solubilization in a denaturantand removal of the denaturant. Many proteins precipitate upon removal ofthe denaturant. SDS may be used to solubilize inclusion bodies and cellmembranes and will maintain the proteins in solution at lowconcentration. However, dialysis will not always remove all of the SDS(SDS can form micelles which do not dialyze out); therefore,SDS-solubilized inclusion body protein and SDS-solubilized cell membraneprotein is soluble but not refolded.

A “secreted” protein refers to those proteins capable of being directedto the ER, secretory vesicles, or the extracellular space as a result ofa secretory signal peptide sequence, as well as those proteins releasedinto the extracellular space without necessarily containing a signalsequence. If the secreted protein is released into the extracellularspace, the secreted protein can undergo extracellular processing toproduce a “mature” protein. Release into the extracellular space canoccur by many mechanisms, including exocytosis and proteolytic cleavage.In some other embodiments of the inventive composition, the recombinantfusion protein can be synthesized by the host cell as a secretedprotein, which can then be further purified from the extracellular spaceand/or medium.

The term “recombinant” indicates that the material (e.g., a nucleic acidor a polypeptide) has been artificially or synthetically (i.e.,non-naturally) altered by human intervention. The alteration can beperformed on the material within, or removed from, its naturalenvironment or state. For example, a “recombinant nucleic acid” is onethat is made by recombining nucleic acids, e.g., during cloning, DNAshuffling or other well known molecular biological procedures. A“recombinant DNA molecule,” is comprised of segments of DNA joinedtogether by means of such molecular biological techniques. The term“recombinant protein” or “recombinant polypeptide” as used herein refersto a protein molecule which is expressed using a recombinant DNAmolecule. A “recombinant host cell” is a cell that contains and/orexpresses a recombinant nucleic acid.

A “polynucleotide sequence” or “nucleotide sequence” or “nucleic acidsequence,” as used interchangeably herein, is a polymer of nucleotides,including an oligonucleotide, a DNA, and RNA, a nucleic acid, or acharacter string representing a nucleotide polymer, depending oncontext. From any specified polynucleotide sequence, either the givennucleic acid or the complementary polynucleotide sequence can bedetermined. Included are DNA or RNA of genomic or synthetic origin whichmay be single- or double-stranded, and represent the sense or antisensestrand.

As used herein, the terms “nucleic acid molecule encoding,” “DNAsequence encoding,” and “DNA encoding” refer to the order or sequence ofdeoxyribonucleotides along a strand of deoxyribonucleic acid. The orderof these deoxyribonucleotides determines the order of ribonucleotidesalong the mRNA chain, and also determines the order of amino acids alongthe polypeptide (protein) chain. The DNA sequence thus codes for the RNAsequence and for the amino acid sequence.

“Expression of a gene” or “expression of a nucleic acid” meanstranscription of DNA into RNA (optionally including modification of theRNA, e.g., splicing), translation of RNA into a polypeptide (possiblyincluding subsequent post-translational modification of thepolypeptide), or both transcription and translation, as indicated by thecontext.

The term “gene” is used broadly to refer to any nucleic acid associatedwith a biological function. Genes typically include coding sequencesand/or the regulatory sequences required for expression of such codingsequences. The term “gene” applies to a specific genomic or recombinantsequence, as well as to a cDNA or mRNA encoded by that sequence. A“fusion gene” contains a coding region that encodes a fusion protein.Genes also include non-expressed nucleic acid segments that, forexample, form recognition sequences for other proteins. Non-expressedregulatory sequences including transcriptional control elements to whichregulatory proteins, such as transcription factors, bind, resulting intranscription of adjacent or nearby sequences.

As used herein the term “coding region” when used in reference to astructural gene refers to the nucleotide sequences which encode theamino acids found in the nascent polypeptide as a result of translationof an mRNA molecule. The coding region is bounded, in eukaryotes, on the5′ side by the nucleotide triplet “ATG” which encodes the initiatormethionine and on the 3′ side by one of the three triplets which specifystop codons (i.e., TAA, TAG, TGA).

Transcriptional control signals in eukaryotes comprise “promoter” and“enhancer” elements. Promoters and enhancers consist of short arrays ofDNA sequences that interact specifically with cellular proteins involvedin transcription (Maniatis, et al., Science 236:1237 (1987)). Promoterand enhancer elements have been isolated from a variety of eukaryoticsources including genes in yeast, insect and mammalian cells and viruses(analogous control elements, i.e., promoters, are also found inprokaryotes). The selection of a particular promoter and enhancerdepends on what cell type is to be used to express the protein ofinterest. Some eukaryotic promoters and enhancers have a broad hostrange while others are functional in a limited subset of cell types (forreview see Voss, et al., Trends Biochem. Sci., 11:287 (1986) andManiatis, et al., Science 236:1237 (1987)).

The term “expression vector” as used herein refers to a recombinant DNAmolecule containing a desired coding sequence and appropriate nucleicacid sequences necessary for the expression of the operably linkedcoding sequence in a particular host cell. Nucleic acid sequencesnecessary for expression in prokaryotes include a promoter, optionallyan operator sequence, a ribosome binding site and possibly othersequences. Eukaryotic cells are known to utilize promoters, enhancers,and termination and polyadenylation signals. A secretory signal peptidesequence can also, optionally, be encoded by the expression vector,operably linked to the coding sequence for the inventive recombinantfusion protein, so that the expressed fusion protein can be secreted bythe recombinant host cell, for more facile isolation of the fusionprotein from the cell, if desired. Such techniques are well known in theart. (E.g., Goodey, Andrew R.; et al., Peptide and DNA sequences, U.S.Pat. No. 5,302,697; Weiner et al., Compositions and methods for proteinsecretion, U.S. Pat. No. 6,022,952 and U.S. Pat. No. 6,335,178; Uemuraet al., Protein expression vector and utilization thereof, U.S. Pat. No.7,029,909; Ruben et al., 27 human secreted proteins, US 2003/0104400A1).

The terms “in operable combination”, “in operable order” and “operablylinked” as used herein refer to the linkage of nucleic acid sequences insuch a manner that a nucleic acid molecule capable of directing thetranscription of a given gene and/or the synthesis of a desired proteinmolecule is produced. The term also refers to the linkage of amino acidsequences in such a manner so that a functional protein is produced.

Recombinant DNA- and/or RNA-mediated protein expression techniques, orany other methods of preparing peptides or, are applicable to the makingof the inventive recombinant fusion proteins. For example, the peptidescan be made in transformed host cells. Briefly, a recombinant DNAmolecule, or construct, coding for the peptide is prepared. Methods ofpreparing such DNA molecules are well known in the art. For instance,sequences encoding the peptides can be excised from DNA using suitablerestriction enzymes. Any of a large number of available and well-knownhost cells may be used in the practice of this invention. The selectionof a particular host is dependent upon a number of factors recognized bythe art. These include, for example, compatibility with the chosenexpression vector, toxicity of the peptides encoded by the DNA molecule,rate of transformation, ease of recovery of the peptides, expressioncharacteristics, bio-safety and costs. A balance of these factors mustbe struck with the understanding that not all hosts may be equallyeffective for the expression of a particular DNA sequence. Within thesegeneral guidelines, useful microbial host cells in culture includebacteria (such as Escherichia coli sp.), yeast (such as Saccharomycessp.) and other fungal cells, insect cells, plant cells, mammalian(including human) cells, e.g., CHO cells and HEK293 cells. Modificationscan be made at the DNA level, as well. The peptide-encoding DNA sequencemay be changed to codons more compatible with the chosen host cell. ForE. coli, optimized codons are known in the art. Codons can besubstituted to eliminate restriction sites or to include silentrestriction sites, which may aid in processing of the DNA in theselected host cell. Next, the transformed host is cultured and purified.Host cells may be cultured under conventional fermentation conditions sothat the desired compounds are expressed. Such fermentation conditionsare well known in the art.

In further describing the fusion proteins herein, a one-letterabbreviation system is frequently applied to designate the identities ofthe twenty “canonical” amino acid residues generally incorporated intonaturally occurring peptides and proteins (Table 1). Such one-letterabbreviations are entirely interchangeable in meaning with three-letterabbreviations, or non-abbreviated amino acid names. Within theone-letter abbreviation system used herein, an upper case letterindicates a L-amino acid, and a lower case letter indicates a D-aminoacid. For example, the abbreviation “R” designates L-arginine and theabbreviation “r” designates D-arginine.

TABLE 1 One-letter abbreviations for the canonical amino acids.Three-letter abbreviations are in parentheses. Alanine (Ala) A Glutamine(Gln) Q Leucine (Leu) L Serine (Ser) S Arginine (Arg) R Glutamic Acid(Glu) E Lysine (Lys) K Threonine (Thr) T Asparagine (Asn) N Glycine(Gly) G Methionine (Met) M Tryptophan (Trp) W Aspartic Acid (Asp) DHistidine (His) H Phenylalanine (Phe) F Tyrosine (Tyr) Y Cysteine (Cys)C Isoleucine (Ile) I Proline (Pro) P Valine (Val) V

An amino acid substitution in an amino acid sequence is typicallydesignated herein with a one-letter abbreviation for the amino acidresidue in a particular position, followed by the numerical amino acidposition relative to a native sequence of interest, which is thenfollowed by the one-letter symbol for the amino acid residue substitutedin. For example, “T30D” symbolizes a substitution of a threonine residueby an aspartate residue at amino acid position 30, relative to thenative sequence of interest.

Non-canonical amino acid residues can be incorporated into a peptidewithin the scope of the invention by employing known techniques ofprotein engineering that use recombinantly expressing cells. (See, e.g.,Link et al., Non-canonical amino acids in protein engineering, CurrentOpinion in Biotechnology, 14(6):603-609 (2003)). The term “non-canonicalamino acid residue” refers to amino acid residues in D- or L-form thatare not among the 20 canonical amino acids generally incorporated intonaturally occurring proteins, for example, β-amino acids, homoaminoacids, cyclic amino acids and amino acids with derivatized side chains.Examples include (in the L-form or D-form; abbreviated as inparentheses): citrulline (Cit), homocitrulline (hCit),N^(α)-methylcitrulline (NMeCit), N^(α)-methylhomocitrulline(N^(α)-MeHoCit), ornithine (Orn), N^(α)-Methylornithine (N^(α)-MeOrn orNMeOrn), sarcosine (Sar), homolysine (hLys or hK), homoarginine (hArg orhR), homoglutamine (hQ), N^(α)-methylarginine (NMeR),N^(α)-methylleucine (N^(α)-MeL or NMeL), N-methylhomolysine (NMeHoK),N^(α)-methylglutamine (NMeQ), norleucine (Nle), norvaline (Nva),1,2,3,4-tetrahydroisoquinoline (Tic), Octahydroindole-2-carboxylic acid(Oic), 3-(1-naphthyl)alanine (1-Nal), 3-(2-naphthyl)alanine (2-Nal),1,2,3,4-tetrahydroisoquinoline (Tic), 2-indanylglycine (IgI),para-iodophenylalanine (pI-Phe), para-aminophenylalanine (4AmP or4-Amino-Phe), 4-guanidino phenylalanine (Guf), nitrophenylalanine(nitrophe), aminophenylalanine (aminophe or Amino-Phe),benzylphenylalanine (benzylphe), γ-carboxyglutamic acid (γ-carboxyglu),hydroxyproline (hydroxypro), p-carboxyl-phenylalanine (Cpa),α-aminoadipic acid (Aad), Nα-methyl valine (NMeVal), N-α-methyl leucine(NMeLeu), Nα-methylnorleucine (NMeNle), cyclopentylglycine (Cpg),cyclohexylglycine (Chg), acetylarginine (acetylarg),α,β-diaminopropionoic acid (Dpr), α,γ-diaminobutyric acid (Dab),diaminopropionic acid (Dap), cyclohexylalanine (Cha),4-methyl-phenylalanine (MePhe), β,β-diphenyl-alanine (BiPhA),aminobutyric acid (Abu), 4-phenyl-phenylalanine (or biphenylalanine;4Bip), α-amino-isobutyric acid (Aib), beta-alanine, beta-aminopropionicacid, piperidinic acid, aminocaprioic acid, aminoheptanoic acid,aminopimelic acid, desmosine, diaminopimelic acid, N-ethylglycine,N-ethylaspargine, hydroxylysine, allo-hydroxylysine, isodesmosine,allo-isoleucine, N-methylglycine, N-methylisoleucine, N-methylvaline,4-hydroxyproline (Hyp), γ-carboxyglutamate, ε-N,N,N-trimethyllysine,ε-N-acetyllysine, O-phosphoserine, N-acetylserine, N-formylmethionine,3-methylhistidine, 5-hydroxylysine, ω-methylarginine, and other similaramino acids, and derivatized forms of any of these as described herein.Table 2 contains some exemplary non-canonical amino acid residues thatare useful in accordance with the present invention and associatedabbreviations as typically used herein, although the skilledpractitioner will understand that different abbreviations andnomenclatures may be applicable to the same substance and my appearinterchangeably herein.

TABLE 2 Useful non-canonical amino acids for amino acid addition,insertion, or substitution into peptide sequences in accordance with thepresent invention. In the event an abbreviation listed in Table 2differs from another abbreviation for the same substance disclosedelsewhere herein, both abbreviations are understood to be applicable.Abbreviation Amino Acid Sar Sarcosine Nle Norleucine Ile isoleucine1-Nal 3-(1-naphthyl)alanine 2-Nal 3-(2-naphthyl)alanine Bip4,4′-biphenyl alanine Dip 3,3-diphenylalanine Nvl norvaline NMe-ValNα-methyl valine NMe-Leu Nα-methyl leucine NMe-Nle Nα-methyl norleucineCpg cyclopentyl glycine Chg cyclohexyl glycine Hyp hydroxy praline OicOctahydroindole-2-Carboxylic Acid Igl Indanyl glycine Aibaminoisobutyric acid Aic 2-aminoindane-2-carboxylic acid Pip pipecolicacid BhTic β-homo Tic BhPro β-homo praline Tiq1,2,3,4-L-Tetrahydroisoquinoline-1-Carboxylic acid Nip Nipecotic AcidThz Thiazolidine-4-carboxylic acid Thi 3-thienyl alanine 4GuaPr4-guanidino proline 4Pip 4-Amino-1-piperidine-4-carboxylic acid Idcindoline-2-carboxylic acid Hydroxyl-Tic1,2,3,4-Tetrahydroisoquinoline-7-hydroxy-3- carboxylic acid Bip4,4′-biphenyl alanine Ome-Tyr O-methyl tyrosine I-Tyr Iodotyrosine Tic1,2,3,4-L-Tetrahydroisoquinoline-3-Carboxylic acid Igl Indanyl glycineBhTic β-homo Tic BhPhe β-homo phenylalanine AMeF α-methyl PhenyalanineBPhe β-phenylalanine Phg Phenylglycine Anc 3-amino-2-naphthoic acid Atc2-aminotetraline-2-carboxylic acid NMe-Phe Nα-methyl phenylalanineNMe-Lys Nα-methyl lysine Tpi 1,2,3,4-Tetrahydronorharman-3-Carboxylicacid Cpg cyclopentyl glycine Dip 3,3-diphenylalanine 4Pal4-pyridinylalanine 3Pal 3-pyridinylalanine 2Pal 2-pyridinylalanine Idcindoline-2-carboxylic acid Chg cyclohexyl glycine hPhe homophenylalanineBhTrp β-homotryptophan pI-Phe 4-iodophenylalanine Orn ornithine Dpr2,3-Diaminopropionic acid Dbu 2,4-Diaminobutyric acid homoLys homolysineN-eMe-K Nε-methyl-lysine N-eEt-K Nε-ethyl-lysine N-eIPr-KNε-isopropyl-lysine bhomoK β-homolysine rLys Lys ψ (CH2NH)-reduced amidebond rOrn Orn ψ (CH2NH)-reduced amide bond Acm acetamidomethyl Ahx6-aminohexanoic acid ε Ahx 6-aminohexanoic acid K (NPeg11)Nε-(O-(aminoethyl)-O′-(2-propanoy1)- undecaethyleneglycol)-Lysine K(NPeg27) Nε-(O-(aminoethyl)-O′-(2-propanoy1)- (ethyleneglycol)27-LysineCit Citrulline hArg homoarginine hCit homocitrulline NMe-Arg Nα-methylarginine (NMeR) Guf 4-guanidinyl phenylalanine bhArg β-homoarginine3G-Dpr 2-amino-3-guanidinopropanoic acid 4AmP 4-amino-phenylalanine4AmPhe 4-amidino-phenylalanine 4AmPig2-amino-2-(1-carbamimidoylpiperidin-4- yl)acetic acid 4GuaPr 4-guanidinoproline N-Arg Nα-[ (CH₂) ₃NHCH(NH)NH₂] substituted glycine rArg Arg ψ(CH2NH)—reduced amide bond 4PipA 4-Piperidinyl alanine NMe-Thr Nα-methylthreonine (or NMeThr)

Nomenclature and Symbolism for Amino Acids and Peptides by the UPAC-IUBJoint Commission on Biochemical Nomenclature (JCBN) have been publishedin the following documents: Biochem. J., 1984, 219, 345-373; Eur. J.Biochem., 1984, 138, 9-37; 1985, 152, 1; 1993, 213, 2; Internat. J.Pept. Prot. Res., 1984, 24, following p 84; J. Biol. Chem., 1985, 260,14-42; Pure Appl. Chem., 1984, 56, 595-624; Amino Acids and Peptides,1985, 16, 387-410; Biochemical Nomenclature and Related Documents, 2ndedition, Portland Press, 1992, pages 39-69.

The one or more useful modifications to peptide domains of the inventiverecombinant fusion protein can include amino acid additions orinsertions, amino acid deletions, peptide truncations, amino acidsubstitutions, and/or chemical derivatization of amino acid residues,accomplished by known chemical techniques. For example, the thuslymodified amino acid sequence includes at least one amino acid residueinserted or substituted therein, relative to the amino acid sequence ofthe native sequence of interest, in which the inserted or substitutedamino acid residue has a side chain comprising a nucleophilic orelectrophilic reactive functional group by which the peptide isconjugated to a linker and/or half-life extending moiety. In accordancewith the invention, useful examples of such a nucleophilic orelectrophilic reactive functional group include, but are not limited to,a thiol, a primary amine, a seleno, a hydrazide, an aldehyde, acarboxylic acid, a ketone, an aminooxy, a masked (protected) aldehyde,or a masked (protected) keto functional group. Examples of amino acidresidues having a side chain comprising a nucleophilic reactivefunctional group include, but are not limited to, a lysine residue, ahomolysine, an α,β-diaminopropionic acid residue, an α,γ-diaminobutyricacid residue, an ornithine residue, a cysteine, a homocysteine, aglutamic acid residue, an aspartic acid residue, or a selenocysteineresidue.

Amino acid residues are commonly categorized according to differentchemical and/or physical characteristics. The term “acidic amino acidresidue” refers to amino acid residues in D- or L-form having sidechains comprising acidic groups. Exemplary acidic residues includeaspartatic acid and glutamatic acid residues. The term “aromatic aminoacid residue” refers to amino acid residues in D- or L-form having sidechains comprising aromatic groups. Exemplary aromatic residues includetryptophan, tyrosine, 3-(1-naphthyl)alanine, or phenylalanine residues.The term “basic amino acid residue” refers to amino acid residues in D-or L-form having side chains comprising basic groups. Exemplary basicamino acid residues include histidine, lysine, homolysine, ornithine,arginine, N-methyl-arginine, ω-aminoarginine, ω-methyl-arginine,1-methyl-histidine, 3-methyl-histidine, and homoarginine (hR) residues.The term “hydrophilic amino acid residue” refers to amino acid residuesin D- or L-form having side chains comprising polar groups. Exemplaryhydrophilic residues include cysteine, serine, threonine, histidine,lysine, asparagine, aspartate, glutamate, glutamine, and citrulline(Cit) residues. The terms “lipophilic amino acid residue” refers toamino acid residues in D- or L-form having sidechains comprisinguncharged, aliphatic or aromatic groups. Exemplary lipophilic sidechainsinclude phenylalanine, isoleucine, leucine, methionine, valine,tryptophan, and tyrosine. Alanine (A) is amphiphilic—it is capable ofacting as a hydrophilic or lipophilic residue. Alanine, therefore, isincluded within the definition of both “lipophilic residue” and“hydrophilic residue.” The term “nonfunctional amino acid residue”refers to amino acid residues in D- or L-form having side chains thatlack acidic, basic, or aromatic groups. Exemplary neutral amino acidresidues include methionine, glycine, alanine, valine, isoleucine,leucine, and norleucine (Nle) residues.

Additional useful embodiments of conjugated recombinant fusion proteinscan result from conservative modifications of the amino acid sequencesof the polypeptides disclosed herein. Conservative modifications willproduce half-life extending moiety-conjugated peptides havingfunctional, physical, and chemical characteristics similar to those ofthe conjugated (e.g., PEG-conjugated) peptide from which suchmodifications are made. Such conservatively modified forms of thevehicle- or PEG-conjugated peptides disclosed herein are alsocontemplated as being an embodiment of the present invention.

In contrast, substantial modifications in the functional and/or chemicalcharacteristics of the fusion proteins may be accomplished by selectingsubstitutions in the amino acid sequence that differ significantly intheir effect on maintaining (a) the structure of the molecular backbonein the region of the substitution, for example, as an α-helicalconformation, (b) the charge or hydrophobicity of the molecule at thetarget site, or (c) the size of the molecule.

For example, a “conservative amino acid substitution” may involve asubstitution of a native amino acid residue with a normative residuesuch that there is little or no effect on the polarity or charge of theamino acid residue at that position. Furthermore, any native residue inthe polypeptide may also be substituted with alanine, as has beenpreviously described for “alanine scanning mutagenesis” (see, forexample, MacLennan et al., Acta Physiol. Scand. Suppl., 643:55-67(1998); Sasaki et al., 1998, Adv. Biophys. 35:1-24 (1998), which discussalanine scanning mutagenesis).

Desired amino acid substitutions (whether conservative ornon-conservative) can be determined by those skilled in the art at thetime such substitutions are desired. For example, amino acidsubstitutions can be used to identify important residues of the peptidesequence, or to increase or decrease the affinity of the peptide orvehicle-conjugated peptide molecules described herein.

Naturally occurring residues may be divided into classes based on commonside chain properties:

1) hydrophobic: norleucine (Nor), Met, Ala, Val, Leu, Ile;

2) neutral hydrophilic: Cys, Ser, Thr, Asn, Gln;

3) acidic: Asp, Glu;

4) basic: His, Lys, Arg;

5) residues that influence chain orientation: Gly, Pro; and

6) aromatic: Trp, Tyr, Phe.

Conservative amino acid substitutions may involve exchange of a memberof one of these classes with another member of the same class.Conservative amino acid substitutions may encompass non-naturallyoccurring amino acid residues, which are typically incorporated bychemical peptide synthesis rather than by synthesis in biologicalsystems. These include peptidomimetics and other reversed or invertedforms of amino acid moieties.

Non-conservative substitutions may involve the exchange of a member ofone of these classes for a member from another class. Such substitutedresidues may be introduced into regions of the fusion protein.

In making such changes, according to certain embodiments, thehydropathic index of amino acids may be considered. Each amino acid hasbeen assigned a hydropathic index on the basis of its hydrophobicity andcharge characteristics. They are: isoleucine (+4.5); valine (+4.2);leucine (+3.8); phenylalanine (+2.8); cysteine/cystine (+2.5);methionine (+1.9); alanine (+1.8); glycine (−0.4); threonine (−0.7);serine (−0.8); tryptophan (−0.9); tyrosine (−1.3); proline (−1.6);histidine (−3.2); glutamate (−3.5); glutamine (−3.5); aspartate (−3.5);asparagine (−3.5); lysine (−3.9); and arginine (−4.5).

The importance of the hydropathic amino acid index in conferringinteractive biological function on a protein is understood in the art(see, for example, Kyte et al., 1982, J. Mol. Biol. 157:105-131). It isknown that certain amino acids may be substituted for other amino acidshaving a similar hydropathic index or score and still retain a similarbiological activity. In making changes based upon the hydropathic index,in certain embodiments, the substitution of amino acids whosehydropathic indices are within ±2 is included. In certain embodiments,those that are within ±1 are included, and in certain embodiments, thosewithin ±0.5 are included.

It is also understood in the art that the substitution of like aminoacids can be made effectively on the basis of hydrophilicity,particularly where the biologically functional protein or peptidethereby created is intended for use in immunological embodiments, asdisclosed herein. In certain embodiments, the greatest local averagehydrophilicity of a protein, as governed by the hydrophilicity of itsadjacent amino acids, correlates with its immunogenicity andantigenicity, i.e., with a biological property of the protein.

The following hydrophilicity values have been assigned to these aminoacid residues: arginine (+3.0); lysine (+3.0); aspartate (+3.0±1);glutamate (+3.0±1); serine (+0.3); asparagine (+0.2); glutamine (+0.2);glycine (0); threonine (−0.4); proline (−0.5±1); alanine (−0.5);histidine (−0.5); cysteine (−1.0); methionine (−1.3); valine (−1.5);leucine (−1.8); isoleucine (−1.8); tyrosine (−2.3); phenylalanine (−2.5)and tryptophan (−3.4). In making changes based upon similarhydrophilicity values, in certain embodiments, the substitution of aminoacids whose hydrophilicity values are within ±2 is included, in certainembodiments, those that are within ±1 are included, and in certainembodiments, those within ±0.5 are included. One may also identifyepitopes from primary amino acid sequences on the basis ofhydrophilicity. These regions are also referred to as “epitopic coreregions.”

Examples of conservative substitutions include the substitution of onenon-polar (hydrophobic) amino acid residue such as isoleucine, valine,leucine norleucine, alanine, or methionine for another, the substitutionof one polar (hydrophilic) amino acid residue for another such asbetween arginine and lysine, between glutamine and asparagine, betweenglycine and serine, the substitution of one basic amino acid residuesuch as lysine, arginine or histidine for another, or the substitutionof one acidic residue, such as aspartic acid or glutamic acid foranother. The phrase “conservative amino acid substitution” also includesthe use of a chemically derivatized residue in place of anon-derivatized residue, provided that such polypeptide displays therequisite bioactivity. Other exemplary amino acid substitutions that canbe useful in accordance with the present invention are set forth inTable 2.

TABLE 2 Some Useful Amino Acid Substitutions. Original ExemplaryResidues Substitutions Ala Val, Leu, Ile Arg Lys, Gln, Asn Asn Gln AspGlu Cys Ser, Ala Gln Asn Glu Asp Gly Pro, Ala His Asn, Gln, Lys, Arg IleLeu, Val, Met, Ala, Phe, Norleucine Leu Norleucine, Ile, Val, Met, Ala,Phe Lys Arg, 1,4-Diamino- butyric Acid, Gln, Asn Met Leu, Phe, Ile PheLeu, Val, Ile, Ala, Tyr Pro Ala Ser Thr, Ala, Cys Thr Ser Trp Tyr, PheTyr Trp, Phe, Thr, Ser Val Ile, Met, Leu, Phe, Ala, Norleucine

As stated herein above, in accordance with the present invention, thepeptide portions of the inventive fusion protein can also be chemicallyderivatized at one or more amino acid residues by known organicchemistry techniques. “Chemical derivative” or “chemically derivatized”refers to a subject peptide having one or more residues chemicallyderivatized by reaction of a functional side group. Such derivatizedmolecules include, for example, those molecules in which free aminogroups have been derivatized to form amine hydrochlorides, p-toluenesulfonyl groups, carbobenzoxy groups, t-butyloxycarbonyl groups,chloroacetyl groups or formyl groups. Free carboxyl groups may bederivatized to form salts, methyl and ethyl esters or other types ofesters or hydrazides. Free hydroxyl groups may be derivatized to formO-acyl or O-alkyl derivatives. The imidazole nitrogen of histidine maybe derivatized to form N-im-benzylhistidine. Also included as chemicalderivatives are those peptides which contain one or more naturallyoccurring amino acid derivatives of the twenty canonical amino acids,whether in L- or D-form. For example, 4-hydroxyproline may besubstituted for proline; 5-hydroxylysine maybe substituted for lysine;3-methylhistidine may be substituted for histidine; homoserine may besubstituted for serine; and ornithine may be substituted for lysine.

Useful derivatizations include, in some embodiments, those in which theamino terminal of the peptide is chemically blocked so that conjugationwith the vehicle will be prevented from taking place at an N-terminalfree amino group. There may also be other beneficial effects of such amodification, for example a reduction in the fusion protein'ssusceptibility to enzymatic proteolysis. The N-terminus can be acylatedor modified to a substituted amine, or derivatized with anotherfunctional group, such as an aromatic moiety (e.g., an indole acid,benzyl (Bzl or Bn), dibenzyl (DiBz1 or Bn₂), or benzyloxycarbonyl (Cbzor Z)), N,N-dimethylglycine or creatine. For example, in someembodiments, an acyl moiety, such as, but not limited to, a formyl,acetyl (Ac), propanoyl, butanyl, heptanyl, hexanoyl, octanoyl, ornonanoyl, can be covalently linked to the N-terminal end of the peptide,which can prevent undesired side reactions during conjugation of thevehicle to the peptide. Other exemplary N-terminal derivative groupsinclude —NRR¹ (other than —NH₂), —NRC(O)R¹, —NRC(O)OR¹, —NRS(O)₂R¹,—NHC(O)NHR', succinimide, or benzyloxycarbonyl-NH— (Cbz-NH—), wherein Rand R¹ are each independently hydrogen or lower alkyl and wherein thephenyl ring may be substituted with 1 to 3 substituents selected fromC₁-C₄ alkyl, C₁-C₄ alkoxy, chloro, and bromo.

In some embodiments, one or more peptidyl [—C(O)NR—] linkages (bonds)between amino acid residues can be replaced by a non-peptidyl linkage.Exemplary non-peptidyl linkages are —CH₂-carbamate [—CH₂—OC(O)NR—],phosphonate, —CH₂-sulfonamide [—CH₂—S(O)₂NR—], urea [—NHC(O)NH—],—CH₂-secondary amine, and alkylated peptide [—C(O)NR⁶— wherein R⁶ islower alkyl].

In some embodiments, one or more individual amino acid residues can bederivatized. Various derivatizing agents are known to react specificallywith selected sidechains or terminal residues, as described in detailbelow by way of example.

Lysinyl residues and amino terminal residues may be reacted withsuccinic or other carboxylic acid anhydrides, which reverse the chargeof the lysinyl residues. Other suitable reagents for derivatizingalpha-amino-containing residues include imidoesters such as methylpicolinimidate; pyridoxal phosphate; pyridoxal; chloroborohydride;trinitrobenzenesulfonic acid; O-methylisourea; 2,4 pentanedione; andtransaminase-catalyzed reaction with glyoxylate.

Arginyl residues may be modified by reaction with any one or combinationof several conventional reagents, including phenylglyoxal,2,3-butanedione, 1,2-cyclohexanedione, and ninhydrin. Derivatization ofarginyl residues requires that the reaction be performed in alkalineconditions because of the high pKa of the guanidine functional group.Furthermore, these reagents may react with the groups of lysine as wellas the arginine epsilon-amino group.

Specific modification of tyrosyl residues has been studied extensively,with particular interest in introducing spectral labels into tyrosylresidues by reaction with aromatic diazonium compounds ortetranitromethane. Most commonly, N-acetylimidizole andtetranitromethane are used to form O-acetyl tyrosyl species and 3-nitroderivatives, respectively.

Carboxyl sidechain groups (aspartyl or glutamyl) may be selectivelymodified by reaction with carbodiimides (R′—N═C═N—R′) such as1-cyclohexyl-3-(2-morpholinyl-(4-ethyl) carbodiimide or1-ethyl-3-(4-azonia-4,4-dimethylpentyl) carbodiimide. Furthermore,aspartyl and glutamyl residues may be converted to asparaginyl andglutaminyl residues by reaction with ammonium ions.

Glutaminyl and asparaginyl residues may be deamidated to thecorresponding glutamyl and aspartyl residues. Alternatively, theseresidues are deamidated under mildly acidic conditions. Either form ofthese residues falls within the scope of this invention.

Cysteinyl residues can be replaced by amino acid residues or othermoieties either to eliminate disulfide bonding or, conversely, tostabilize cross-linking (See, e.g., Bhatnagar et al., J. Med. Chem.,39:3814-3819 (1996)).

Derivatization with bifunctional agents is useful for cross-linking thepeptides or their functional derivatives to a water-insoluble supportmatrix, if desired, or to other macromolecular vehicles. Commonly usedcross-linking agents include, e.g., 1,1-bis(diazoacetyl)-2-phenylethane,glutaraldehyde, N-hydroxysuccinimide esters, for example, esters with4-azidosalicylic acid, homobifunctional imidoesters, includingdisuccinimidyl esters such as 3,3′-dithiobis(succinimidylpropionate),and bifunctional maleimides such as bis-N-maleimido-1,8-octane.Derivatizing agents such asmethyl-3-[(p-azidophenyl)dithio]propioimidate yield photoactivatableintermediates that are capable of forming crosslinks in the presence oflight. Alternatively, reactive water-insoluble matrices such as cyanogenbromide-activated carbohydrates and the reactive substrates, e.g., asdescribed in U.S. Pat. Nos. 3,969,287; 3,691,016; 4,195,128; 4,247,642;4,229,537; and 4,330,440, are employed for protein immobilization.

Other possible modifications include hydroxylation of proline andlysine, phosphorylation of hydroxyl groups of seryl or threonylresidues, oxidation of the sulfur atom in Cys, methylation of thealpha-amino groups of lysine, arginine, and histidine side chains.Creighton, Proteins: Structure and Molecule Properties (W. H. Freeman &Co., San Francisco), 79-86 (1983).

The above examples of derivatizations are not intended to be anexhaustive treatment, but merely illustrative.

The production of the recombinant fusion protein can also involvesuitable protein purification techniques, when applicable. In someembodiments of the fusion proteins of the invention, the molecule can beprepared to include a suitable isotopic label (e.g., ¹²⁵I, ¹⁴C, ¹³C,³⁵S, ³H, ²H, ¹³N, ¹⁵N, ¹⁸O, ¹⁷O, etc.), for ease of quantification ordetection.

The placement of the small pharmacologically inactive protein domain(“D”) within the inventive recombinant fusion protein can be closer tothe N-terminal end of the fusion protein than the pharmacologicallyactive protein (“P”) part of the fusion protein. Alternatively, otheruseful embodiments of the inventive recombinant fusion protein have thepharmacologically active protein situated closer to the N-terminal endof the fusion protein than the small pharmacologically inactive proteindomain. Optionally, there can be a peptidyl linker between the twofusion partners, as described herein, or there can be additional peptidedomains, or “tails”, fused on either, or both, of the N-terminal andC-terminal ends of the fusion protein.

The small pharmacologically inactive protein domain is of human origin,but also encompassed is an amino acid sequence of human origin that ismodified in one or more ways relative to the native human sequence ofinterest to facilitate covalent conjugation to a linker or half-lifeextending moiety, such as an activated PEG. For example, a nucleophilicor electrophilic reactive functional group can be added to a side chainand/or a terminus, such as, but not limited to, a thiol, a primaryamine, a seleno, a hydrazide, an aldehyde, a carboxylic acid, a ketone,an aminooxy, a masked (protected) aldehyde, or a masked (protected) ketofunctional group. For example, a cysteine residue, or a residue thatprovides a reactive primary or secondary amino group, can be insertedinto the sequence or can be substituted for another residue in thenative human sequence.

Small pharmacologically inactive protein domains suitable for use withinthe present invention are selected for their small size, which can rangefrom about 3 to about 20 kDa, and typically is about 4 to about 12 kDa,which can aid in high level expression in prokaryotic hosts. Inaddition, such a useful small pharmacologically inactive protein domainis of human origin. This has the advantage of minimizing immunogenicitywhen the inventive composition is employed as part of a therapeuticmolecule for administration to humans. The small pharmacologicallyinactive protein domain is characterized by forming a stable“stand-alone” protein domain, i.e., a domain that maintains its abilityto fold into its native, or near-native, secondary and/or tertiarystructure in a pharmaceutically acceptable aqueous formulation buffer ofinterest, and is soluble in such a buffer when folded (or refolded, ifnecessary). Thus, a small pharmacologically inactive protein domainsuitable for use in the present invention should be one that formsinsignificant amounts of insoluble aggregates (aggregates less thanabout 10%, and typically less than about 5%, of total protein) when itis suspended without other proteins (at physiologically compatibletemperature) in a pharmaceutically acceptable aqueous formulation bufferof interest, not containing a detergent or chaotropic agent, such asurea, guanidinium hydrochloride, or lithium perchlorate. Such aformulation buffer is one that is suitable for administration to amammal by injection or other drug delivery route (if need be, aftersterile re-hydration or thawing of the lyophilized or frozen formulationbuffer). Such pharmaceutically acceptable formulation buffers, suitablefor the administration of protein therapeutic agents, are well known inthe biopharmaceutical art and can be selected from various compositionsand pH (e.g., between about pH 5.0 to about pH 8.2), involving, forexample, but not limited to, acetate, citrate,tris(hydroxymethyl)aminomethane, or phosphate buffer systems, andoptionally containing various other excipient, cryoprotectant,surfactant, tonicifying and/or stabilizing components (e.g., polysorbate20, polysorbate 80) known in the biopharmaceutical art. (See, e.g., Lamet al., U.S. Pat. No. 6,171,586; Pearlman et al., U.S. Pat. No.5,096,885; O'Connor et al. U.S. Pat. No. 5,981,485; Castensson et al.U.S. Pat. No. 5,567,677; Brych et al. US20070190047A1, all of whichforegoing are incorporated by reference in their entireties.) Otherexamples of pharmaceutically acceptable formulation buffers that may beof interest include: 10 mM acetic acid, 9% sucrose, pH 5.0; 10 mM Tris,150 mM NaCl, pH 8.0; and 10 mM NaH₂PO₄, 140 mM NaCl, pH 7.2.

Within the present invention, useful embodiments of the smallpharmacologically inactive protein domain include fragments ormodifications of the native sequence of human origin, including aminoacid additions or insertions, amino acid deletions, peptide truncations,amino acid substitutions, or chemical derivatization of amino acidresidues (accomplished by known chemical techniques), as long as thepreceding characteristics of a stable stand-alone domain are maintained.

Useful examples of the small pharmacologically inactive protein domaininclude a 10^(th) fibronectin III domain, a SH3 domain, a SH2 domain, aCH2 domain of IgG1, a PDZ domain, a thrombospondin repeat domain, anubiquitin domain, a leucine-rich repeat domain a villin headpiece HP35domain, or a villin headpiece HP76 domain, or a fragment or amodification of any of these that is soluble and maintains its native,or near-native, secondary or tertiary structure, in a biologicallycompatible aqueous buffer at physiological pH (i.e., about pH 6.8-7.4)and temperature. Amino acid sequences for some of these include thefollowing:

1. CH2 Domain of Human IgG1 Sequence:

SEQ ID NO: 1 GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTI SKAKG//;or a truncated fragment of CH2 Domain of Human IgG1, such as:

SEQ ID NO: 107 GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTI S//or

SEQ ID NO: 108 PSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTI S//;or2. Human Tenth Fibronectin III Domain (Also Designated “FN3” or “FnIII”or “10thFn3”) sequences:

SEQ ID NO: 2VSDVPRDLEVVAATPTSLLISWDAPAVTVRYYRITYGETGGNSPVQEFTVPGSKSTATISGLKPGVDYTITVYAVTGRGDSPASSKPISINYRTEIDKPSQ//or a truncated fragment thereof, such as:

SEQ ID NO: 13VSDVPRDLEVVAATPTSLLISWDAPAVTVRYYRITYGETGGNSPVQEFTVPGSKSTATISGLKPGVDYTITVYAVTGRGDSPASSKPISINYRTE//or an extension, such as:

SEQ ID NO: 50TVSDVPRDLEVVAATPTSLLISWDAPAVTVRYYRITYGETGGNSPVQEFTVPGSKSTATISGLKPGVDYTITVYAVTGRGDSPASSKPISINYRTE//;

3. Human PDZ Domain (Erbin):

SEQ ID NO: 3GSMEIRVRVEKDPELGFSISGGVGGRGNPFRPDDDGIFVTRVQPEGPASKLLQPGDKIIQANGYSFINIEHGQAVSLLKTFQNTVELIIVREVSS//,

PDZ(1N7F): SEQ ID NO: 102SSGAIIYTVELKRYGGPLGITISGTEEPFDPIIISSLTKGGLAERTGAIHIGDRILAINSSSLKGKPLSEAIHLLQMAGETVTLKIKKQTDAQSASSP//, PDZ(lUEZ): SEQ ID NO: 103PGEVRLVSLRRAKAHEGLGFSIRGGSEHGVGIYVSLVEPGSLAEKEGLRVGDQILRVNDKSLARVTHAEAVKALKGSKKLVLSVYSAGRIP//, PDZ(1WFV): SEQ ID NO: 104PQDFDYFTVD MEKGAKGFGF SIRGGREYKM DLYVLRLAED GPAIRNGRMRVGDQIIEING ESTRDMTHAR AIELIKSGGR RVRLLLKRGT GQVP//;

4. Human SH3 Domain (Fyn):

SEQ ID NO: 4VTLFVALYDYEARTEDDLSFHKGEKFQILNSSEGDWWEARSLTTGETGYIPSNYVAPV//; SH3(1PHT):SEQ ID NO: 105SAEGYQYRALYDYKKEREEDIDLHLGDILTVNKGSLVALGFSDGQEARPEEIGWLNGYNETTGERGDFPGTYVEYIGRKKISP//, SH3(1WA7): SEQ ID NO: 106PEEQGDIVVA LYPYDGIHPD DLSFKKGEKM KVLEEHGEWW KAKSLLTKKE GFIPSNYVAK LNT//SH3(1X2K): SEQ ID NO: 94KVFRALYTFE PRTPDELYFE EGDIIYITDM SDTNWWKGTS KGRTGLIPSN YVAEQ//

5. Human SH2 Domain (Grb2):

SEQ ID NO: 5 GSMAWFFGKIPRAKAEEMLSKQRHDGAFLIRESESAPGDFSLSVKFGNDVQHFKVLRDGAGKYFLWVVKFNSLNELVDYHRSTSVSRNQQIFLRDI// SH2(1AB2):SEQ ID NO: 109 NSLEKHSWYH GPVSRNAAEY LLSSGINGSF LVRESESSPGQRSISLRYEG RVYHYRINTA SDGKLYVSSE SRFNTLAELV HHHSTVADGL ITTLHYPAP//;SH2(1JYQ): SEQ ID NO: 110 PWFFGKIPRA KAEEMLSKQR HDGAFLIRES ESAPGDFSLSVKFGNDVQHF KVLRDGAGKY FLWVVKFNSL NELVDYHRST SVSRNQQIFL RDIEQ//;

Ubiquitin:

SEQ ID NO: 6MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG//;

Thrombospondin Repeat Domain:

SEQ ID NO: 7QDGGWSHWSPWSSCSVTCGDGVITRIRLCNSPSPQMNGKPCEGEARETKACKKDACP//;

Leucine-Rich Repeat Domain:

SEQ ID NO: 8LHLSENLLYTFSLATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFA//;and Villin headpiece domain, such as the HP-35 subdomain (FIG. 13; SEQID NO:61) or HP-76 subdomain, which is the following sequence:

SEQ ID NO: 89 VFNANSNLSS GPLPIFPLEQ LVNKPVEELP EGVDPSRKEEHLSIEDFTQA FGMTPAAFSA LPRWKQQNLK KEKGLF//;or a modified sequence for facilitating PEGylation, e.g:,

SEQ ID NO: 90 VFNANSNLSS GPLPIFPLEQLVNKPVEELP EGVDPSRKEE HLSIEDFTQA FGMTPAAFSA LPRWKQQCLK KEKGLF//.

The four digit code following a domain family name herein is thecoordinate dataset identifier for that particular protein depositied inthe RCSB Protein Databank (www.rcsb.org/pdb/). For example, PDZ (1N7F)refers to the sixth PDZ domain of GRIP1; PDZ (lUEZ) refers to the firstPDZ domain of human KIAA1526 protein; PDZ(1WFV) refers to the fifth PDZdomain of human membrane associated guanylate kinase inverted-2;SH2(1AB2) refers to the SRC homology 2 domain of C-ABL; SH2(1JYQ) refersto the Grb2 SRC homology 2 domain; SH3(1PHT) refers to thephosphatidylinositol 3-kinase P85-alpha subunit SH3 domain; SH3(1WA7)refers to SH3 domain of human LYN tyrosine kinase; and SH3(1X2K) refersto SH3 domain of human osteoclast stimulating factor 1.

The inventive compositions involve a pharmacologically active protein(“P”) part of the recombinant fusion protein. The term“pharmacologically active” means that a substance so described isdetermined to have activity that affects a medical parameter (e.g.,blood pressure, blood cell count, cholesterol level, pain perception) ordisease state (e.g., cancer, autoimmune disorders, chronic pain).Conversely, the term “pharmacologically inactive” means that no activityaffecting a medical parameter or disease state can be determined forthat substance. Thus, pharmacologically active peptides or proteinscomprise agonistic or mimetic and antagonistic peptides as definedbelow. The present invention encompasses the use of anypharmacologically active protein, which has an amino acid sequenceranging from about 5 to about 80 amino acid residues in length, andwhich is amenable to recombinant expression. In some useful embodimentsof the invention, the pharmacologically active protein is modified inone or more ways relative to a native sequence of interest, includingamino acid additions or insertions, amino acid deletions, peptidetruncations, amino acid substitutions, or chemical derivatization ofamino acid residues (accomplished by known chemical techniques), so longas the requisite bioactivity is maintained.

The terms “-mimetic peptide,” “peptide mimetic,” and “-agonist peptide”refer to a peptide or protein having biological activity comparable to anaturally occurring protein of interest, for example, but not limitedto, a toxin peptide molecule, e.g., naturally occurring OSK1 toxinpeptide. These terms further include peptides that indirectly mimic theactivity of a naturally occurring peptide molecule, such as bypotentiating the effects of the naturally occurring molecule.

The term “-antagonist peptide,” “peptide antagonist,” and “inhibitorpeptide” refer to a peptide that blocks or in some way interferes withthe biological activity of a receptor of interest, or has biologicalactivity comparable to a known antagonist or inhibitor of a receptor ofinterest (such as, but not limited to, an ion channel or a G-ProteinCoupled Receptor (GPCR)).

Examples of pharmacologically active proteins that can be used withinthe present invention include, but are not limited to, a toxin peptide(e.g., OSK1 or an OSK1 peptide analog; ShK or an ShK peptide analog), aCGRP peptide antagonist, a bradykinin B1 receptor peptide antagonist, aparathyroid hormone (PTH) agonist peptide, a parathyroid hormone (PTH)antagonist peptide, an ang-2 binding peptide, a myostatin bindingpeptide, an erythropoietin-mimetic (EPO-mimetic) peptide, athrombopoietin-mimetic (TPO-mimetic) peptide, a nerve growth factor(NGF) binding peptide, a B cell activating factor (BAFF) bindingpeptide, and a glucagon-like peptide (GLP)-1 or a peptide mimeticthereof or GLP-2 or a peptide mimetic thereof.

Glucagon-like peptide 1 (GLP-1) and the related peptide glucagon areproduced via differential processing of proglucagon and have opposingbiological activities. Proglucagon itself is produced in α-cells of thepancreas and in the enteroendocrine L-cells, which are located primarilyin the distal small intestine and colon. In the pancreas, glucagon isselectively cleaved from proglucagon. In the intestine, in contrast,proglucagon is processed to form GLP-1 and glucagon-like peptide 2(GLP-2), which correspond to amino acid residues 78-107 and 126-158 ofproglucagon, respectively (see, e.g., Irwin and Wong, 1995, Mol.Endocrinol. 9:267-277 and Bell et al., 1983, Nature 304:368-371). Byconvention, the numbering of the amino acids of GLP-1 is based on theGLP-1 (1-37) formed from cleavage of proglucagon. The biologicallyactive forms are generated from further processing of this peptide,which, in one numbering convention, yields GLP-1 (7-37)-OH and GLP-1(7-36)-NH₂. Both GLP-1 (7-37)-OH (or simply GLP-1 (7-37)) and GLP-1(7-36)-NH₂ have the same activities. For convenience, the term “GLP-1”,is used to refer to both of these forms. The first amino acid of theseprocessed peptides is His7 in this numbering convention. Anothernumbering convention recognized in the art, however, assumes that thenumbering of the processed peptide begins with H is as position 1 ratherthan position 7. Thus, in this numbering scheme, GLP-1 (1-31) is thesame as GLP-1(7-37), and GLP-1(1-30) is the same as GLP-1 (7-36).Examples of GLP-1 mimetic polypeptide sequences include:

(SEQ ID NO: 45) HGEGTFTSDQSSYLEGQAAKEFIAWLVKGRG//; (SEQ ID NO: 46)HGEGTFTSDQSSYLEGQAAKEFIAWLQKGRG//; (SEQ ID NO: 47)HGEGTFTSDVSSYQEGQAAKEFIAWLVKGRG//; (SEQ ID NO: 48)HGEGTFTSDVSSYLEGQAAKEFIAQLVKGRG//; (SEQ ID NO: 91)HGEGTFTSDVSSYLEGQAAKEFIAQLQKGRG//; (SEQ ID NO: 92)HGEGTFTSDVSSYLEGQAAKEFIAWLQKGRG//; (SEQ ID NO: 93)HNETTFTSDVSSYLEGQAAKEFIAWLVKGRG// (SEQ ID NO: 95)HGEGTFTSDVSSYLENQTAKEFIAWLVKGRG//; (SEQ ID NO: 96)HGEGTFTSDVSSYLEGNATKEFIAWLVKGRG//; (SEQ ID NO: 97)HGEGTFTSDVSSYLEGQAAKEFIAWLVNGTG//; (SEQ ID NO: 98)HGEGTFTSDVSSYLEGQAAKEFIAWLVKNRT//; (SEQ ID NO: 99)HGEGTFTSDVSSYLEGQAAKEFIAWLVKGRNGT//; (SEQ ID NO: 100)HGEGTFTSDVSSYLEGQAAKEFIAWLVKGRGGTGNGT//; and (SEQ ID NO: 101)HGEGTFTSDVSSYLEGQAAKEFIAWLVKGRGGSGNGT//.

Human GLP-2 and GLP-2-mimetic analogs are also known in the art. (See,e.g., Prasad et al., Glucagonlike peptide-2 analogue enhances intestinalmucosal mass after ischemia and reperfusion, J. Pediatr. Surg. 2000February; 35(2):357-59 (2000); Yusta et al., Glucagon-like peptide-2receptor activation engages bad and glycogen synthase kinase-3 in aprotein kinase A-dependent manner and prevents apoptosis followinginhibition of phosphatidylinositol 3-kinase, J. Biol. Chem.277(28):24896-906 (2002)).

“Toxin peptides” include peptides and polypeptides having the same aminoacid sequence of a naturally occurring pharmacologically active peptideor polypeptide that can be isolated from a venom, and also includemodified peptide analogs of such naturally occurring molecules. (See,e.g., Kalman et al., ShK-Dap22, a potent Kv1.3-specificimmunosuppressive polypeptide, J. Biol. Chem. 273(49):32697-707 (1998);Kem et al., U.S. Pat. No. 6,077,680; Mouhat et al., OsK1 derivatives, WO2006/002850 A2; Chandy et al., Analogs of SHK toxin and their uses inselective inhibition of Kv1.3 potassium channels, WO 2006/042151;Sullivan et al., Toxin Peptide therapeutic agents, WO 2006/116156 A2,all of which are incorporated herein by reference in their entirety).Snakes, scorpions, spiders, bees, snails and sea anemone are a fewexamples of organisms that produce venom that can serve as a rich sourceof small bioactive toxin peptides or “toxins” that potently andselectively target ion channels and receptors. An example of a toxinpeptide is OSK1 (also known as OsK1), a toxin peptide isolated fromOrthochirus scrobiculosus scorpion venom. (e.g., Mouhat et al., K⁺channel types targeted by synthetic OSK1, a toxin from Orthochirusscrobiculosus scorpion venom, Biochem. J. 385:95-104 (2005); Mouhat etal., Pharmacological profiling of Orthochirus scrobiculosus toxin 1analogs with a trimmed N-terminal domain, Molec. Pharmacol. 69:354-62(2006); Mouhat et al., OsK1 derivatives, WO 2006/002850 A2). Anotherexample is ShK, isolated from the venom of the sea anemone Stichodactylahelianthus. (E.g., Tudor et al., Ionisation behaviour and solutionproperties of the potassium-channel blocker ShK toxin, Eur. J. Biochem.251(1-2):133-41 (1998); Pennington et al., Role of disulfide bonds inthe structure and potassium channel blocking activity of ShK toxin,Biochem. 38(44): 14549-58 (1999); Kem et al., ShK toxin compositions andmethods of use, U.S. Pat. No. 6,077,680; Lebrun et al., Neuropeptidesoriginating in scorpion, U.S. Pat. No. 6,689,749; Beeton et al.,Targeting effector memory T cells with a selective peptide inhibitor ofKv1.3 channnels for therapy of autoimmune diseases, Molec. Pharmacol.67(4):1369-81 (2005)).

The toxin peptides are usually between about 20 and about 80 amino acidsin length, contain 2-5 disulfide linkages and form a very compactstructure. Toxin peptides (e.g., from the venom of scorpions, seaanemones and cone snails) have been isolated and characterized for theirimpact on ion channels. Such peptides appear to have evolved from arelatively small number of structural frameworks that are particularlywell suited to addressing the critical issues of potency and stability.The majority of scorpion and Conus toxin peptides, for example, contain10-40 amino acids and up to five disulfide bonds, forming extremelycompact and constrained structure (microproteins) often resistant toproteolysis. The conotoxin and scorpion toxin peptides can be dividedinto a number of superfamilies based on their disulfide connections andpeptide folds. The solution structure of many of these has beendetermined by NMR spectroscopy, illustrating their compact structure andverifying conservation of their family fold. (E.g., Tudor et al.,Ionisation behaviour and solution properties of the potassium-channelblocker ShK toxin, Eur. J. Biochem. 251(1-2):133-41 (1998); Penningtonet al., Role of disulfide bonds in the structure and potassium channelblocking activity of ShK toxin, Biochem. 38(44): 14549-58 (1999);Jaravine et al., Three-dimensional structure of toxin OSK1 fromOrthochirus scrobiculosus scorpion venom, Biochem. 36(6):1223-32 (1997);del Rio-Portillo et al.; NMR solution structure of Cn12, a novel peptidefrom the Mexican scorpion Centruroides noxius with a typical beta-toxinsequence but with alpha-like physiological activity, Eur. J. Biochem.271(12): 2504-16 (2004); Prochnicka-Chalufour et al., Solution structureof discrepin, a new K+-channel blocking peptide from the alpha-KTx15subfamily, Biochem. 45(6):1795-1804 (2006)). Examples ofpharmacologically active toxin peptides for which the practice of thepresent invention can be useful include, but are not limited to ShK,OSK1, charybdotoxin (ChTx), kaliotoxinl KTX1), or maurotoxin, or toxinpeptide analogs of any of these, modified from the native sequences atone or more amino acid residues. Other examples are known in the art, orcan be found in Sullivan et al., WO06116156 A2 or U.S. patentapplication Ser. No. 11/406,454 (titled: Toxin Peptide TherapeuticAgents, published as US 2007/0071764); Mouhat et al., OsK1 derivatives,WO 2006/002850 A2; Sullivan et al., U.S. patent application Ser. No.11/978,076 (titled: Conjugated Toxin Peptide Therapeutic Agents, filed25 Oct. 2007), Lebrun et al., U.S. Pat. No. 6,689,749, which are eachincorporated by reference in their entireties.

The term “peptide analog” refers to a peptide having a sequence thatdiffers from a peptide sequence existing in nature by at least one aminoacid residue substitution, internal addition, or internal deletion of atleast one amino acid, and/or amino- or carboxy-terminal end truncations,or additions). An “internal deletion” refers to absence of an amino acidfrom a sequence existing in nature at a position other than the N- orC-terminus. Likewise, an “internal addition” refers to presence of anamino acid in a sequence existing in nature at a position other than theN- or C-terminus. “Toxin peptide analogs”, such as, but not limited to,an OSK1 peptide analog, ShK peptide analog, or ChTx peptide analog,contain modifications of a native toxin peptide sequence of interest(e.g., amino acid residue substitutions, internal additions orinsertions, internal deletions, and/or amino- or carboxy-terminal endtruncations, or additions as previously described above) relative to anative toxin peptide sequence of interest, which is in the case of OSK1:GVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//SEQ ID NO:111; and in the caseof ShK is RSCIDTIPKSRCTAFQCKHSMKYRLSFCRKTCGTC//SEQ ID NO:112.

A “CGRP peptide antagonist” is a peptide that preferentially binds theCGRP₁ receptor, such as, but not limited to, a CGRP peptide analog, andthat antagonizes, blocks, decreases, reduces, impedes, or inhibits CGRP₁receptor activation by full length native human αCGRP or βCGRP underphysiological conditions of temperature, pH, and ionic strength. CGRPpeptide antagonists include full and partial antagonists. Suchantagonist activity can be detected by known in vitro methods or in vivofunctional assay methods. (See, e.g., Smith et al., Modifications to theN-terminus but not the C-terminus of calcitonin gene-relatedpeptide(8-37) produce antagonists with increased affinity, J. Med.Chem., 46:2427-2435 (2003)). Examples of useful CGRP peptide antagonistsare disclosed in Gegg et al., CGRP peptide antagonists and conjugates,WO 2007/048026 A2 and U.S. Ser. No. 11/584,177, filed on Oct. 19, 2006,published as US 2008/0020978 A1, which is incorporated herein byreference in its entirety.

The terms “parathyroid hormone (PTH) agonist” and “PTH agonist” refer toa molecule that binds to PTH-1 or PTH-2 receptor and increases ordecreases one or more PTH activity assay parameters as does full-lengthnative human parathyroid hormone. Examples of useful PTH agonistpeptides are disclosed in Table 1 of U.S. Pat. No. 6,756,480, titledModulators of receptors for parathyroid hormone and parathyroidhormone-related protein, which is incorporated herein by reference inits entirety. An exemplary PTH activity assay is disclosed in Example 1of U.S. Pat. No. 6,756,480.

The term “parathyroid hormone (PTH) antagonist” refers to a moleculethat binds to PTH-1 or PTH-2 receptor and blocks or prevents the normaleffect on those parameters by full length native human parathyroidhormone. Examples of useful PTH antagonist peptides are disclosed inTable 2 of U.S. Pat. No. 6,756,480, which is incorporated herein byreference in its entirety. An exemplary PTH activity assay is disclosedin Example 2 of U.S. Pat. No. 6,756,480.

The terms “bradykinin B1 receptor antagonist peptide” and “bradykinin B1receptor peptide antagonist” mean a peptide with antagonist activitywith respect to human bradykinin B1 receptor (hB1). Useful bradykinin B1receptor antagonist peptides can be identified or derived as describedin Ng et al., Antagonist of the bradykinin B1 receptor, US 2005/0215470A1, published Sep. 29, 2005, or U.S. Pat. Nos. 5,834,431 or 5,849,863.An exemplary B1 receptor activity assays are disclosed in Examples 6-8of US 2005/0215470 A1.

The terms “thrombopoietin (TPO)-mimetic peptide” and “TPO-mimeticpeptide” refer to peptides that can be identified or derived asdescribed in Cwirla et al. (1997), Science 276: 1696-9, U.S. Pat. Nos.5,869,451 and 5,932,946, which are incorporated by reference in theirentireties; U.S. Pat. App. No. 2003/0176352, published Sep. 18, 2003,which is incorporated by reference in its entirety; WO 03/031589,published Apr. 17, 2003; WO 00/24770, published May 4, 2000; and anypeptides appearing in Table 5 of published application US 2006/0140934(U.S. Ser. No. 11/234,731, filed Sep. 23, 2005, titled Modified FcMolecules, which is incorporated herein by reference in its entirety).Those of ordinary skill in the art appreciate that each of thesereferences enables one to select different peptides than actuallydisclosed therein by following the disclosed procedures with differentpeptide libraries. The terms “EPO-mimetic peptide” and“erythropoietin-mimetic peptide” refers to peptides that can beidentified or derived as described in Wrighton et al. (1996), Science273: 458-63, and Naranda et al. (1999), Proc. Natl. Acad. Sci. USA 96:7569-74, both of which are incorporated herein by reference in theirentireties. Useful EPO-mimetic peptides include EPO-mimetic peptideslisted in Table 5 of published U.S. patent application US 2007/0269369A1 and in U.S. Pat. No. 6,660,843, which are both hereby incorporated byreference in their entireties.

The term “ang-2-binding peptide” comprises peptides that can beidentified or derived as described in U.S. Pat. App. No. 2003/0229023,published Dec. 11, 2003; WO 03/057134, published Jul. 17, 2003; U.S.2003/0236193, published Dec. 25, 2003 (each of which is incorporatedherein by reference in its entirety); and any peptides appearing inTable 6 of published application US 2006/0140934 (U.S. Ser. No.11/234,731, filed Sep. 23, 2005, titled Modified Fc Molecules, which isincorporated herein by reference in its entirety). Those of ordinaryskill in the art appreciate that each of these references enables one toselect different peptides than actually disclosed therein by followingthe disclosed procedures with different peptide libraries.

The terms “nerve growth factor (NGF) binding peptide” and “NGF-bindingpeptide” comprise peptides that can be identified or derived asdescribed in WO 04/026329, published Apr. 1, 2004 and any peptidesidentified in Table 7 of published application US 2006/0140934 (U.S.Ser. No. 11/234,731, filed Sep. 23, 2005, titled Modified Fc Molecules,which is incorporated herein by reference in its entirety). Those ofordinary skill in the art appreciate that this reference enables one toselect different peptides than actually disclosed therein by followingthe disclosed procedures with different peptide libraries.

The term “myostatin-binding peptide” comprises peptides that can beidentified or derived as described in U.S. Ser. No. 10/742,379, filedDec. 19, 2003, which is incorporated herein by reference in itsentirety, and peptides appearing in Table 8 of published application US2006/0140934 (U.S. Ser. No. 11/234,731, filed Sep. 23, 2005, titledModified Fc Molecules, which is incorporated herein by reference in itsentirety). Those of ordinary skill in the art appreciate that each ofthese references enables one to select different peptides than actuallydisclosed therein by following the disclosed procedures with differentpeptide libraries.

The terms “BAFF-antagonist peptide” and “BAFF binding peptide” comprisepeptides that can be identified or derived as described in U.S. Pat.Appln. No. 2003/0195156 A1, which is incorporated herein by reference inits entirety and those peptides appearing in Table 9 of publishedapplication US 2006/0140934 (U.S. Ser. No. 11/234,731, filed Sep. 23,2005, titled Modified Fc Molecules, which is incorporated herein byreference in its entirety). Those of ordinary skill in the artappreciate that the foregoing references enable one to select differentpeptides than actually disclosed therein by following the disclosedprocedures with different peptide libraries.

The small size of the small pharmacologically inactive protein domain(D) selected typically results in a short serum half-life for the fusionprotein molecule, which can allow, optionally, for modulation of thepharmacokinetic profile of the molecule to fit the therapeutic need byattaching or conjugating covalently one or more half-life extendingmoieties of various masses and configurations to the fusion protein. A“half-life extending moiety” (or “F¹”) refers to a molecule thatprevents or mitigates in vivo degradation by proteolysis or otheractivity-diminishing chemical modification, increases in vivo half-lifeor other pharmacokinetic properties such as but not limited toincreasing the rate of absorption, reduces toxicity, reducesimmunogenicity, improves solubility, increases biological activityand/or target selectivity of the fusion protein with respect to a targetof interest, and/or increases manufacturability, compared to anunconjugated form of the fusion protein. In accordance with theinvention, the half-life extending moiety is one that ispharmaceutically acceptable. The half-life extending moiety should beselected such that the conjugated fusion protein (i.e., fusion proteinwith half-life extending moiety covalently attached thereto) achieves asufficient hydrodynamic size to reduce clearance by renal filtration invivo. For example, a half-life extending moiety can be selected that isa polymeric macromolecule, which is substantially straight chain,branched-chain, or dendritic in form. Alternatively, a half-lifeextending moiety can be selected such that, in vivo, the inventivecomposition of matter will bind to a plasma protein to form a complex,such that the complex thus formed avoids or reduces substantial renalclearance.

Exemplary half-life extending moiety that can be used, in accordancewith the present invention, include a polyalkylene glycol compound, suchas a polyethylene glycol (PEG) or a polypropylene glycol. Otherappropriate polyalkylene glycol compounds include, but are not limitedto, charged or neutral polymers of the following types: dextran,colominic acids or other carbohydrate based polymers, polymers of aminoacids, and biotin derivatives.

Other examples of the half-life extending moiety, in accordance with theinvention, include a copolymer of ethylene glycol, a copolymer ofpropylene glycol, a carboxymethylcellulose, a polyvinyl pyrrolidone, apoly-1,3-dioxolane, a poly-1,3,6-trioxane, an ethylene maleic anhydridecopolymer, a polyaminoacid (e.g., polylysine or polyornithine), adextran n-vinyl pyrrolidone, a poly n-vinyl pyrrolidone, a propyleneglycol homopolymer, a propylene oxide polymer, an ethylene oxidepolymer, a polyoxyethylated polyol, a polyvinyl alcohol, a linear orbranched glycosylated chain, a polyacetal, a long chain fatty acid, along chain hydrophobic aliphatic group.

Other embodiments of the half-life extending moiety, in accordance withthe invention, include peptide ligands or small (organic) moleculeligands that have binding affinity for a long half-life plasma proteinunder physiological conditions of temperature, pH, and ionic strength.Examples include an albumin-binding peptide or small molecule (i.e.,organic non-peptidyl) ligand, a transthyretin-binding peptide or smallmolecule ligand, a thyroxine-binding globulin-binding peptide or smallmolecule ligand, an antibody-binding peptide or small molecule ligand,or another peptide or small molecule that has an affinity for a longhalf-life plasma protein. (See, e.g., Blaney et al., Method andcompositions for increasing the serum half-life of pharmacologicallyactive agents by binding to transthyretin-selective ligands, U.S. Pat.No. 5,714,142; Sato et al., Serum albumin binding moieties, US2003/0069395 A1; Jones et al., Pharmaceutical active conjugates, U.S.Pat. No. 6,342,225). A “long half-life plasma protein” is one of thehundreds of different proteins dissolved in mammalian blood plasma,including so-called “carrier proteins” (such as albumin, transferrin andhaptoglobin), fibrinogen and other blood coagulation factors, complementcomponents, immunoglobulins, enzyme inhibitors, precursors of substancessuch as angiotensin and bradykinin and many other types of proteins.

The invention encompasses the use of any single species ofpharmaceutically acceptable half-life extending moiety, such as, but notlimited to, those described herein, in conjugation with the fusionprotein, or the use of a combination of two or more like or differenthalf-life extending moieties.

In being conjugated, the half-life extending moiety, as describedherein, is covalently bound directly to an amino acid residue of thefusion protein itself, or optionally, to a peptidyl or non-peptidyllinker (including but not limited to aromatic or aryl linkers) that iscovalently bound to an amino acid residue of the fusion protein. Any“linker” group is optional. When present, its chemical structure is notcritical, since it serves primarily as a spacer, which can be useful inoptimizing pharamcologial activity of some embodiments of the inventivecomposition. The linker is preferably made up of amino acids linkedtogether by peptide bonds. The linker moiety, if present, can beindependently the same or different from any other linker, or linkers,that may be present in the inventive composition.

As stated above, the linker, if present (whether within the primaryamino acid sequence of the recombinant fusion protein, or as a linkerfor attaching a half-life extending moiety to the fusion protein), canbe peptidyl in nature (i.e., made up of amino acids linked together bypeptide bonds) and made up in length, preferably, of from 1 up to about40 amino acid residues, more preferably, of from 1 up to about 20 aminoacid residues, and most preferably of from 1 to about 10 amino acidresidues. Preferably, but not necessarily, the amino acid residues inthe linker are from among the twenty canonical amino acids, morepreferably, cysteine, glycine, alanine, proline, asparagine, glutamine,and/or serine. Even more preferably, a peptidyl linker is made up of amajority of amino acids that are sterically unhindered, such as glycine,serine, and alanine linked by a peptide bond. It is also desirable that,if present, a peptidyl linker be selected that avoids rapid proteolyticturnover in circulation in vivo. Some of these amino acids may beglycosylated, as is well understood by those in the art. For example, auseful linker sequence constituting a sialylation site is X₁X₂NX₄X₅G(SEQ ID NO:9), wherein X₁, X₂, X₄ and X₅ are each independently anyamino acid residue.

In other embodiments, the 1 to 40 amino acids are selected from glycine,alanine, proline, asparagine, glutamine, and lysine. Preferably, alinker is made up of a majority of amino acids that are stericallyunhindered, such as glycine and alanine Thus, preferred linkers includepolyglycines, polyserines, and polyalanines, or combinations of any ofthese. Some exemplary peptidyl linkers are poly(Gly)₁₋₈, particularly(Gly)₃, (Gly)₄ (SEQ ID NO:10), (Gly)₅ (SEQ ID NO:11) and (Gly)₇ (SEQ IDNO:12), as well as, poly(Gly)₄Ser (SEQ ID NO:21), poly(Gly-Ala)₂₋₄ andpoly(Ala)₁₋₈. Other specific examples of peptidyl linkers include(Gly)₅Lys (SEQ ID NO:14), and (Gly)₅LysArg (SEQ ID NO:15). Otherspecific examples of linkers are: Other examples of useful peptidyllinkers are:

(SEQ ID NO: 16) (Gly)₃Lys(Gly)₄; (SEQ ID NO: 17) (Gly)₃AsnGlySer(Gly)₂;(SEQ ID NO: 18) (Gly)₃Cys(Gly)₄; and (SEQ ID NO: 19) GlyProAsnGlyGly.

To explain the above nomenclature, for example, (Gly)₃Lys(Gly)₄ meansGly-Gly-Gly-Lys-Gly-Gly-Gly-Gly (SEQ ID NO:20). Other combinations ofGly and Ala are also useful.

Other preferred linkers are those identified herein as “L5” (GGGGS; SEQID NO:21), “L10” (GGGGSGGGGS; SEQ ID NO:22), “L25”(GGGGSGGGGSGGGGSGGGGSGGGGS; SEQ ID NO:23) and any linkers used in theworking examples hereinafter.

In some embodiments of the compositions of this invention, whichcomprise a peptide linker moiety (“L”), acidic residues, for example,glutamate or aspartate residues, are placed in the amino acid sequenceof the linker moiety (L). Examples include the following peptide linkersequences:

(SEQ ID NO: 24) GGEGGG; (SEQ ID NO: 25) GGEEEGGG; (SEQ ID NO: 26) GEEEG;(SEQ ID NO: 27) GEEE; (SEQ ID NO: 28) GGDGGG; (SEQ ID NO: 29) GGDDDGG;(SEQ ID NO: 30) GDDDG; (SEQ ID NO: 31) GDDD; (SEQ ID NO: 32)GGGGSDDSDEGSDGEDGGGGS; (SEQ ID NO: 33) WEWEW; (SEQ ID NO: 34) FEFEF;(SEQ ID NO: 35) EEEWWW; (SEQ ID NO: 36) EEEFFF; (SEQ ID NO: 37) WWEEEWW;or (SEQ ID NO: 38) FFEEEFF.

In other embodiments, the linker constitutes a phosphorylation site,e.g., X₁X₂YX₄X₅G (SEQ ID NO:39), wherein X₁, X₂, X₄, and X₅ are eachindependently any amino acid residue; X₁X₂SX₄X₅G (SEQ ID NO:40), whereinX₁, X₂, X₄ and X₅ are each independently any amino acid residue; orX₁X₂TX₄X₅G (SEQ ID NO:41), wherein X₁, X₂, X₄ and X₅ are eachindependently any amino acid residue.

The linkers shown here are exemplary; peptidyl linkers within the scopeof this invention may be much longer and may include other residues. Apeptidyl linker can contain, e.g., a cysteine, another thiol, ornucleophile for conjugation with a half-life extending moiety.

In another embodiment, the linker contains a cysteine or homocysteineresidue, or other 2-amino-ethanethiol or 3-amino-propanethiol moiety forconjugation to maleimide, iodoacetaamide or thioester, functionalizedhalf-life extending moiety. Another useful peptidyl linker is a large,flexible linker comprising a random Gly/Ser/Thr sequence, for example:GSGSATGGSGSTASSGSGSATH (SEQ ID NO:42) or HGSGSATGGSGSTASSGSGSAT (SEQ IDNO:43), that is estimated to be about the size of a 1 kDa PEG molecule.Alternatively, a useful peptidyl linker may be comprised of amino acidsequences known in the art to form rigid helical structures (e.g., Rigidlinker: -AEAAAKEAAAKEAAAKAGG-) (SEQ ID NO:44). Additionally, a peptidyllinker can also comprise a non-peptidyl segment such as a 6 carbonaliphatic molecule of the formula —CH₂—CH₂—CH₂—CH₂—CH₂—CH₂—. Thepeptidyl linkers can be altered to form derivatives as described herein.

Optionally, non-peptidyl linkers are also useful for conjugating thehalf-life extending moiety to the peptide portion of the half-lifeextending moiety-conjugated fusion protein. For example, alkyl linkerssuch as —NH—(CH2)_(s)—C(O)—, wherein s=2-20 can be used. These alkyllinkers may further be substituted by any non-sterically hindering groupsuch as lower alkyl (e.g., C₁-C₆) lower acyl, halogen (e.g., Cl, Br),CN, NH₂, phenyl, etc. Exemplary non-peptidyl linkers are PEG linkers(e.g., shown below):

wherein n is such that the linker has a molecular weight of about 100 toabout 5000 kilodaltons (kDa), preferably about 100 to about 500 kDa.

In one embodiment, the non-peptidyl linker is aryl. The linkers may bealtered to form derivatives in the same manner as described herein. Inaddition, PEG moieties may be attached to the N-terminal amine orselected side chain amines by either reductive alkylation using PEGaldehydes or acylation using hydroxysuccinimido or carbonate esters ofPEG, or by thiol conjugation.

“Aryl” is phenyl or phenyl vicinally-fused with a saturated,partially-saturated, or unsaturated 3-, 4-, or 5 membered carbon bridge,the phenyl or bridge being substituted by 0, 1, 2 or 3 substituentsselected from C₁ ₈ alkyl, C₁ ₄ haloalkyl or halo.

“Heteroaryl” is an unsaturated 5, 6 or 7 membered monocyclic orpartially-saturated or unsaturated 6-, 7-, 8-, 9-, 10- or 11 memberedbicyclic ring, wherein at least one ring is unsaturated, the monocyclicand the bicyclic rings containing 1, 2, 3 or 4 atoms selected from N, Oand S, wherein the ring is substituted by 0, 1, 2 or 3 substituentsselected from C₁ ₈ alkyl, C₁ ₄ haloalkyl and halo.

Non-peptide portions of the inventive composition of matter, such asnon-peptidyl linkers or non-peptide half-life extending moieties can besynthesized by conventional organic chemistry reactions.

The above is merely illustrative and not an exhaustive treatment of thekinds of linkers that can optionally be employed in accordance with thepresent invention.

In another useful embodiment of the inventive composition of matterand/or the method of producing a composition of matter, involving aninventive half-life extending moiety-conjugated fusion protein, thefusion protein is conjugated at the amino acid residue at the peptide'samino terminal end to the half-life extending moiety. (See, e.g.,Kinstler et al., N-terminally chemically modified protein compositionsand methods, U.S. Pat. Nos. 5,985,265, and 5,824,784).

It will be appreciated that “multimers” of Formula I, (F¹)_(a)—(X²)_(b)can be made, since the half-life extending moiety, F¹, employed forconjugation to the fusion protein can be multivalent (e.g., bivalent,trivalent, tetravalent or a higher order valency), as to the number ofamino acid residues at which the half-life extending moiety can beconjugated. In some embodiments the peptide portion of the inventivecomposition of matter can be multivalent (e.g., bivalent, trivalent,tetravalent or a higher order valency), and, thus, some “multimers” ofthe inventive composition may have more that one F¹. Consequently, it ispossible by the inventive method of producing a composition of matter toproduce a variety of conjugated half-life extending moiety:peptidestructures. By way of example, a univalent half-life extending moietyand a univalent peptide will produce a 1:1 conjugate; a bivalent peptideand a univalent half-life extending moiety may form conjugates whereinthe peptide conjugates bear two half-life extending moiety moieties,whereas a bivalent half-life extending moiety and a univalent peptidemay produce species where two peptide entities are linked to a singlehalf-life extending moiety; use of higher-valence half-life extendingmoiety can lead to the formation of clusters of peptide entities boundto a single half-life extending moiety, whereas higher-valence peptidesmay become encrusted with a plurality of half-life extending moietymoieties. By way of further example, if the site of conjugation of amultivalent half-life extending moiety to the fusion protein is acysteine or other aminothiol the methods disclosed by D'Amico et al. maybe employed (U.S. Ser. No. 60/646,685, Method of conjugating aminothiolcontaining molecules to water-soluble polymers, which application isincorporated herein by reference in its entirety).

The peptide moieties may have more than one reactive group which willreact with the activated half-life extending moiety and the possibilityof forming complex structures must always be considered; when it isdesired to form simple structures such as 1:1 adducts of half-lifeextending moiety and peptide, or to use bivalent half-life extendingmoiety to form peptide:half-life extending moiety:peptide adducts, itwill be beneficial to use predetermined ratios of activated half-lifeextending moiety and peptide material, predetermined concentrationsthereof and to conduct the reaction under predetermined conditions (suchas duration, temperature, pH, etc.) so as to form a proportion of thedescribed product and then to separate the described product from theother reaction products. The reaction conditions, proportions andconcentrations of the reagents can be obtained by relatively simpletrial-and-error experiments which are within the ability of anordinarily skilled artisan with appropriate scaling-up as necessary.Purification and separation of the products is similarly achieved byconventional techniques well known to those skilled in the art.

Additionally, physiologically acceptable salts of the half-lifeextending moiety-conjugated or unconjugated fusion proteins of thisinvention are also encompassed within the present invention. By“physiologically acceptable salts” is meant any salts that are known orlater discovered to be pharmaceutically acceptable. Some specificexamples are: acetate; trifluoroacetate; hydrohalides, such ashydrochloride and hydrobromide; sulfate; citrate; maleate; tartrate;glycolate; gluconate; succinate; mesylate; besylate; pamoate, tannate,gallic acid ester, cholesteryl sulfate, and oxalate salts.

As an illustration, in some embodiments of the inventive composition ofmatter and/or the method of producing a composition of matter, thehalf-life extending moiety is poly(ethylene glycol) (PEG). Covalentconjugation of proteins with poly(ethylene glycol) (PEG) has been widelyrecognized as an approach to significantly extend the in vivocirculating half-lives of therapeutic proteins. PEGylation achieves thiseffect predominately by retarding renal clearance, since the PEG moietyadds considerable hydrodynamic radius to the protein. (Zalipsky, S., etal., Use of functionalized poly(ethylene glycol)s for modification ofpolypeptides., in poly(ethylene glycol) chemistry: Biotechnical andbiomedical applications., J. M. Harris, Ed., Plenum Press: New York.,347-370 (1992)). Additional benefits often conferred by PEGylation ofproteins include increased solubility, resistance to proteolyticdegradation, and reduced immunogenicity of the therapeutic polypeptide.The merits of protein PEGylation are evidenced by the commercializationof several PEGylated proteins including PEG-Adenosine deaminase(Adagen™/Enzon Corp.), PEG-L-asparaginase (Oncaspar™/Enzon Corp.),PEG-Interferon α-2b (PEG-Intron™/Schering/Enzon), PEG-Interferon α-2a(PEGASYS™/Roche) and PEG-G-CSF (Neulasta™/Amgen) as well as many othersin clinical trials.

By “PEGylated peptide” or “PEGylated protein” is meant a peptide havinga polyethylene glycol (PEG) moiety covalently bound to an amino acidresidue of the peptide itself or to a peptidyl or non-peptidyl linkerthat is covalently bound to a residue of the peptide.

By “polyethylene glycol” or “PEG” is meant a polyalkylene glycolcompound or a derivative thereof, with or without coupling agents orderivatization with coupling or activating moieties (e.g., withaldehyde, hydroxysuccinimidyl, hydrazide, thiol, triflate, tresylate,azirdine, oxirane, orthopyridyl disulphide, vinylsulfone, iodoacetamideor a maleimide moiety). In accordance with the present invention, usefulPEG includes substantially linear, straight chain PEG, branched PEG, ordendritic PEG. (See, e.g., Merrill, U.S. Pat. No. 5,171,264; Harris etal., Multiarmed, monofunctional, polymer for coupling to molecules andsurfaces, U.S. Pat. No. 5,932,462; Shen, N-maleimidyl polymerderivatives, U.S. Pat. No. 6,602,498).

PEG is a well-known, water soluble polymer that is commerciallyavailable or can be prepared by ring-opening polymerization of ethyleneglycol according to methods well known in the art (Sandler and Karo,Polymer Synthesis, Academic Press, New York, Vol. 3, pages 138-161). Inthe present application, the term “PEG” is used broadly to encompass anypolyethylene glycol molecule, in mono-, bi-, or poly-functional form,without regard to size or to modification at an end of the PEG, and canbe represented by the formula:

X—O(CH₂CH₂O)_(n-1)CH₂CH₂OH,  (III)

where n is 20 to 2300 and X is H or a terminal modification, e.g., aC₁₋₄ alkyl.

In some useful embodiments, a PEG used in the invention terminates onone end with hydroxy or methoxy, i.e., X is H or CH₃ (“methoxy PEG”). Itis noted that the other end of the PEG, which is shown in formula (II)terminating in OH, covalently attaches to an activating moiety via anether oxygen bond, an amine linkage, or amide linkage. When used in achemical structure, the term “PEG” includes the formula (II) abovewithout the hydrogen of the hydroxyl group shown, leaving the oxygenavailable to react with a free carbon atom of a linker to form an etherbond. More specifically, in order to conjugate PEG to a peptide, thepeptide must be reacted with PEG in an “activated” form. Activated PEGcan be represented by the formula:

(PEG)-(A)  (IV)

where PEG (defined supra) covalently attaches to a carbon atom of theactivation moiety (A) to form an ether bond, an amine linkage, or amidelinkage, and (A) contains a reactive group which can react with anamino, imino, or thiol group on an amino acid residue of a peptide or alinker moiety covalently attached to the peptide.

Techniques for the preparation of activated PEG and its conjugation tobiologically active peptides are well known in the art. (E.g., see U.S.Pat. Nos. 5,643,575, 5,919,455, 5,932,462, and 5,990,237; Thompson etal., PEGylation of polypeptides, EP 0575545 B1; Petit, Site specificprotein modification, U.S. Pat. Nos. 6,451,986, and 6,548,644; S. Hermanet al., Poly(ethylene glycol) with reactive endgroups: I. Modificationof proteins, J. Bioactive Compatible Polymers, 10:145-187 (1995); Y. Luet al., Pegylated peptides III: Solid-phase synthesis with PEGylatingreagents of varying molecular weight: synthesis of multiply PEGylatedpeptides, Reactive Polymers, 22:221-229 (1994); A. M. Felix et al.,PEGylated Peptides IV: Enhanced biological activity of site-directedPEGylated GRF analogs, Int. J. Peptide Protein Res., 46:253-264 (1995);A. M. Felix, Site-specific poly(ethylene glycol)ylation of peptides, ACSSymposium Series 680(poly(ethylene glycol)): 218-238 (1997); Y. Ikeda etal., Polyethylene glycol derivatives, their modified peptides, methodsfor producing them and use of the modified peptides, EP 0473084 B1; G.E. Means et al., Selected techniques for the modification of proteinside chains, in: Chemical modification of proteins, Holden Day, Inc.,219 (1971)).

Activated PEG, such as PEG-aldehydes or PEG-aldehyde hydrates, can bechemically synthesized by known means or obtained from commercialsources, e.g., Shearwater Polymers, (Huntsville, Ala.) or Enzon, Inc.(Piscataway, N.J.).

An example of a useful activated PEG for purposes of the presentinvention is a PEG-aldehyde compound (e.g., a methoxy PEG-aldehyde),such as PEG-propionaldehyde, which is commercially available fromShearwater Polymers (Huntsville, Ala.). PEG-propionaldehyde isrepresented by the formula PEG-CH₂CH₂CHO. (See, e.g., U.S. Pat. No.5,252,714). Also included within the meaning of “PEG aldehyde compound”are PEG aldehyde hydrates, e.g., PEG acetaldehyde hydrate and PEG bisaldehyde hydrate, which latter yields a bifunctionally activatedstructure. (See., e.g., Bentley et al., Poly(ethylene glycol) aldehydehydrates and related polymers and applications in modifying amines, U.S.Pat. No. 5,990,237) (See., e.g., Bentley et al., Poly(ethylene glycol)aldehyde hydrates and related polymers and applications in modifyingamines, U.S. Pat. No. 5,990,237). An activated multi-branchedPEG-aldehyde compound can be used (PEG derivatives comprising multiplearms to give divalent, trivalent, tetravalent, octavalent constructs).Using a 4-arm PEG derivative four (4) fusion proteins are attached toeach PEG molecule. For example, in accordance with the presentinvention, the recombinant fusion protein can be conjugated to apolyethylene glycol (PEG) at 1, 2, 3 or 4 amino functionalized sites ofthe PEG.

In being conjugated in accordance with the inventive method, thepolyethylene glycol (PEG), as described herein, is covalently bound byreductive amination directly to at least one solvent-exposed free aminemoiety of an amino acid residue of the fusion protein itself. In someembodiments of the inventive method, the fusion protein is conjugated toa PEG at one or more primary or secondary amines on the recombinantfusion protein, or to two PEG groups at a single primary amine site onthe fusion protein (e.g., this can occur when the reductive aminationreaction involves the presence of excess PEG-aldehyde compound). We haveobserved that when PEGylation by reductive amination is at a primaryamine on the peptide, it is not uncommon to have amounts (1 to 100%range) of reaction product that have two or more PEGs present permolecule, and if the desired PEGylation product is one with only one PEGper molecule, then this “over-PEGylation” may be undesirable. WhenPEGylated product with a single PEG per PEGylation product molecule isdesired, an embodiment of the inventive method can be employed thatinvolves PEGylation using secondary amines of the pharmacologicallyactive peptide, because only one PEG group per molecule will betransferred in the reductive amination reaction.

Amino acid residues that can provide a primary amine moiety includeresidues of lysine, homolysine, ornithine, α,β-diaminopropionic acid(Dap), α,β-diaminopropionoic acid (Dpr), and α,γ-diaminobutyric acid(Dab), aminobutyric acid (Abu), and α-amino-isobutyric acid (Aib). Thepolypeptide N-terminus also provides a useful α-amino group forPEGylation. Amino acid residues that can provide a secondary aminemoiety include ε-N-alkyl lysine, α-N-alkyl lysine, δ-N-alkyl ornithine,α-N-alkyl ornithine, or an N-terminal proline, where the alkyl is C₁ toC₆.

Another useful activated PEG for generating the PEGylated recombinantfusion proteins of the present invention is a PEG-maleimide compound,such as, but not limited to, a methoxy PEG-maleimide, such as maleimidomonomethoxy PEG, are particularly useful for generating thePEG-conjugated peptides of the invention. (E.g., Shen, N-maleimidylpolymer derivatives, U.S. Pat. No. 6,602,498; C. Delgado et al., Theuses and properties of PEG-linked proteins., Crit. Rev. Therap. DrugCarrier Systems, 9:249-304 (1992); S. Zalipsky et al., Use offunctionalized poly(ethylene glycol)s for modification of polypeptides,in: Poly(ethylene glycol) chemistry: Biotechnical and biomedicalapplications (J. M. Harris, Editor, Plenum Press: New York, 347-370(1992); S. Herman et al., Poly(ethylene glycol) with reactive endgroups:I. Modification of proteins, J. Bioactive Compatible Polymers,10:145-187 (1995); P. J. Shadle et al., Conjugation of polymer to colonystimulating factor-1, U.S. Pat. No. 4,847,325; G. Shaw et al., Cysteineadded variants IL-3 and chemical modifications thereof, U.S. Pat. No.5,166,322 and EP 0469074 B1; G. Shaw et al., Cysteine added variants ofEPO and chemical modifications thereof, EP 0668353 A1; G. Shaw et al.,Cysteine added variants G-CSF and chemical modifications thereof, EP0668354 A1; N. V. Katre et al., Interleukin-2 muteins and polymerconjugation thereof, U.S. Pat. No. 5,206,344; R. J. Goodson and N. V.Katre, Site-directed pegylation of recombinant interleukin-2 at itsglycosylation site, Biotechnology, 8:343-346 (1990)).

A poly(ethylene glycol) vinyl sulfone is another useful activated PEGfor generating the PEG-conjugated fusion proteins of the presentinvention by conjugation at thiolated amino acid residues, e.g., at Cresidues. (E.g., M. Morpurgo et al., Preparation and characterization ofpoly(ethylene glycol) vinyl sulfone, Bioconj. Chem., 7:363-368 (1996);see also Harris, Functionalization of polyethylene glycol for formationof active sulfone-terminated PEG derivatives for binding to proteins andbiologically compatible materials, U.S. Pat. Nos. 5,446,090; 5,739,208;5,900,461; 6,610,281 and 6,894,025; and Harris, Water soluble activesulfones of poly(ethylene glycol), WO 95/13312 A1).

Another activated form of PEG that is useful in accordance with thepresent invention, is a PEG-N-hydroxysuccinimide ester compound, forexample, methoxy PEG-N-hydroxysuccinimidyl (NHS) ester.

Heterobifunctionally activated forms of PEG are also useful. (See, e.g.,Thompson et al., PEGylation reagents and biologically active compoundsformed therewith, U.S. Pat. No. 6,552,170).

In still other embodiments of the inventive method of producing acomposition of matter, the recombinant fusion protein is reacted byknown chemical techniques with an activated PEG compound, such as butnot limited to, a thiol-activated PEG compound, a diol-activated PEGcompound, a PEG-hydrazide compound, a PEG-oxyamine compound, or aPEG-bromoacetyl compound. (See, e.g., S. Herman, Poly(ethylene glycol)with Reactive Endgroups: I. Modification of Proteins, J. Bioactive andCompatible Polymers, 10:145-187 (1995); S. Zalipsky, Chemistry ofPolyethylene Glycol Conjugates with Biologically Active Molecules,Advanced Drug Delivery Reviews, 16:157-182 (1995); R. Greenwald et al.,Poly(ethylene glycol) conjugated drugs and prodrugs: a comprehensivereview, Critical Reviews in Therapeutic Drug Carrier Systems, 17:101-161(2000)).

An even more preferred activated PEG for generating the PEG-conjugatedfusion proteins of the present invention is a multivalent PEG havingmore than one activated residues. Preferred multivalent PEG moietiesinclude, but are not limited to, those shown below:

The smallest practical size of PEG is about 500 Daltons (Da), belowwhich PEG becomes toxic. Above about 500 Da, any molecular mass for aPEG can be used as practically desired, e.g., from about 1,000 Daltons(Da) to 100,000 Da (n is 20 to 2300). The number of PEG monomers (n) isapproximated from the average molecular mass using a MW=44Da for eachmonomer. It is preferred that the combined molecular mass of PEG on anactivated linker is suitable for pharmaceutical use. Thus, the combinedmolecular mass of the PEG molecule should not exceed about 100,000 Da.

In still other embodiments of the inventive method of producing acomposition of matter, the inventive recombinant fusion protein isreacted by known chemical techniques with an activated multi-branchedPEG compound (PEG derivatives comprising multiple arms to give divalent,trivalent, tetravalent, octavalent constructs), such as but not limitedto, pentaerythritol tetra-polyethyleneglycol ether. Functionalizationand activated derivatives, such as, but not limited to,N-succinimidyloxycarbonyl)propyl, p-nitrophenyloxycarbonyl,(—CO₂-p-C₆H₄NO₂), 3-(N-maleimido)propanamido, 2-sulfanylethyl, and3-aminopropyl. Using a 4-arm PEG derivative, four recombinant fusionproteins are attached to each PEG molecule. For example, in accordancewith the present invention, the fusion protein can be conjugated to apolyethylene glycol (PEG) at:

(a) 1, 2, 3 or 4 amino functionalized sites of the PEG;(b) 1, 2, 3 or 4 thiol functionalized sites of the PEG;(c) 1, 2, 3 or 4 maleimido functionalized sites of the PEG;(d) 1, 2, 3 or 4 N-succinimidyl functionalized sites of the PEG;(e) 1, 2, 3 or 4 carboxyl functionalized sites of the PEG; or(f) 1, 2, 3 or 4 p-nitrophenyloxycarbonyl functionalized sites of thePEG.

Preferably, the combined or total average molecular mass of PEG used ina PEG-conjugated recombinant fusion protein of the present invention isfrom about 3,000 Da to 60,000 Da (total n is from 70 to 1,400), morepreferably from about 10,000 Da to 40,000 Da (total n is about 230 toabout 910). The most preferred combined mass for PEG is from about20,000 Da to 30,000 Da (total n is about 450 to about 680).

Uses of the Inventive Compounds

In General.

The fusion protein compounds of this invention have pharmacologicactivity resulting from their ability to bind to proteins of interest asagonists, mimetics or antagonists of the native ligands of such proteinsof interest. The activity of these compounds can be measured by assaysknown in the art.

In addition to therapeutic uses, the compounds of the present inventionare useful in diagnosing diseases characterized by dysfunction of theirassociated protein of interest. For some of these diagnostic embodimentsand for other detection (including semi-quantitative and quantitative)purposes, covalent conjugation of the active fusion protein to animmobilized substrate as an additional functional moiety, such as butnot limited to, a plate surface, a chip, a bead, a matrix or a particle,can be useful. Also a moiety detectably labeled with a radioisotope, anenzyme (e.g., a peroxidase or a kinase), a biotinyl moiety, afluorophore, or a chromophore can be useful for such puposes.

In one embodiment, a method of detecting in a biological sample aprotein of interest (e.g., a receptor) that is capable of beingactivated comprising the steps of: (a) contacting the sample with acompound of this invention; and (b) detecting activation of the proteinof interest by the compound. The biological samples include tissuespecimens, intact cells, or extracts thereof. The compounds of thisinvention may be used as part of a kit to detect the presence of theirassociated proteins of interest in a biological sample. Such kits employthe compounds of the invention having an attached label to allow fordetection. The compounds are useful for identifying normal or abnormalproteins of interest. For the EPO-mimetic compounds, for example,presence of abnormal protein of interest in a biological sample may beindicative of such disorders as Diamond Blackfan anemia, where it isbelieved that the EPO receptor is dysfunctional.

In addition, embodiments of the compositions of matter of the presentinvention, including the fusion proteins and pharmaceutical compositionsor medicaments containing them are also useful in treating, alleviating,preventing or mitigating symptoms of a wide variety of dieases,disorders, or medical conditions in a patient. “Alleviated” with respectto a symptom means to be lessened, lightened, diminished, softened,mitigated (i.e., made more mild or gentle), quieted, assuaged, abated,relieved, nullified, or allayed, regardless of whether the symptom isentirely erased, eradicated, eliminated, or prevented in a particularpatient.

Therapeutic Uses of CGRP Antagonist Molecules

The CGRP antagonist compounds of the invention are useful for treatingmigraine, and preventing or mitigating migraine and are of benefit inpreventing, alleviating and/or mitigating symptoms of migraine. (See,e.g., Gegg et al., CGRP peptide antagonists and conjugates, WO2007/048026 A2).

If desired, the therapeutic or prophylactic efficacy of CGRP antagonistsmay be tested preclinically, prior to clinical use in humans, using anyappropriate animal model known to those skilled in the art related to aparticular condition of interest. (See, e.g., Wang and Wang, Animal andcellular models of chronic pain, Advanced Drug Delivery Reviews55:949-965 (2003)). An appropriate animal model for migraine can beselected from numerous methods, as described, for example, in Bergerotet al., Review Article: Animal models of migraine: looking at thecomponent parts of a complex disorder, European Journal of Neuroscience24:1517-1534 (2006); and Akerman, S and Goadsby P J, The role ofdopamine in a model of trigeminovascular nociception, Pharmacol. Exp.Ther. 314(1):162-169 (2005), which are both incorporated by reference intheir entireties.

A patient in need of treatment for migraine, or a patient who haspreviously experienced a migraine, are well-recognizable and/ordiagnosed by the skilled practitioner, such as a physician, familiarwith migraine and its symptoms.

There are several types of migraine, each with unique features orsymptoms well known to those of skill in the art, but the presentinvention is not limited to any one type and can be useful in treating,alleviating, preventing or mitigating symptoms of any type of migraine.Classic migraine and common migraine are the two major varieties. Commonmigraine (without aura) is the most frequent type, accounting for about80-85% of migraines. Unlike other headaches, migraines usually occur onone side of the head, although the side that is affected can shift witheach new attack. Migraines are also often accompanied by symptoms ofabnormal sensitivity to light and/or sound. The pain symptoms of amigraine headache are often described as an intense throbbing orpounding felt in the forehead/temple, ear/jaw or around the eyes.Although migraine pain usually appears on one side of the head, 30-40%of migraines occur on both sides. A migraine attack typically lastsabout 4 to 72 hours. Migraine symptoms may also include speechdifficulty, nausea, vomiting, confusion, weakness of an arm or leg andtingling of face or hands.

The basic difference between common and classic types of migraine is theappearance of an “aura.” The aura is the occurrence of neurologicalsymptoms 10-30 minutes before the classic migraine attack. Duringmigraine aura, the migraineur may see flashing or shimmering lights,zigzag lines, geometric shapes, or may temporarily lose vision (e.g.,hemianopsia), or experience blind spots called scotomas, experiencespeech disturbances, or experience other sensory phenomena, such asgustatory and/or olfactory hallucinations. Other symptoms of migraineaura may include numbness, tingling, speech difficulties and muscleweakness on one side of the body.

Another type of migraine is basilar migraine, which is accompanied bytransient brainstem signs thought to be due to vasospastic narrowing ofthe basilar artery. In basilar-type migraine, the migraine sufferermeets the general criteria for migraine with aura and has two or more ofthe following symptoms: dysarthria, vertigo, tinnitus, hypacusia, doublevision (diplopia), bilateral visual symptoms, ataxia, perioral numbness,decreased level of consciousness, and/or simultaneously bilateralparaesthesias.

The above-described symptoms of migraine are merely illustrative and arenot intended to be an exhaustive description of all possible migrainesymptoms experienced by a single patient or by several migrainesufferers in composite, and to which the present invention is directed.Those skilled in the art are aware of various other migraine symptomsand constellations of migraine symptoms suffered by individual patients,and to those migraine symptoms are also directed the present inventivemethods of treating migraine, or preventing or mitigating migraine.

In addition, CGRP antagonists can be useful in the treatment,amelioration, and prevention of sleep disorders, such as sleep apneasand other sleep-related breathing disorders. (e.g., Carley et al.,Pharmacological treatments for sleep disorders, WO 2007/047577 A2).

Therapeutic Uses of Molecules Comprising GLP-1 and GLP-2 and MimeticsThereof.

Glucagon is secreted from the α-cells of the pancreas in response to lowblood sugar, with the main target organ for glucagon being the liver.Glucagon stimulates glycogen breakdown and inhibits glycogenbiosynthesis. It also inhibits fatty acid synthesis, but enhancesgluconeogenesis. The net result of these actions is to significantlyincrease the release of glucose to the liver. GLP-1, in contrast, lowersglucagon secretion, while stimulating insulin secretion, glucose uptakeand cyclic-AMP (cAMP) formation in response to absorption of nutrientsby the gut. Various clinical data provide evidence of these activities.The administration of GLP, for example, to poorly controlled type 2diabetics normalized their fasting blood glucose levels (see, e.g.,Gutniak, et al., 1992, New Eng. J. Med. 326:1316-1322).

GLP-1 has a number of other important activities. For instance, GLP-1also inhibits gastric motility and gastric secretion (see, e.g.,Tolessa, 1998, J. Clin. Invest. 102:764-774). This effect, sometimesreferred to as the ileal brake effect, results in a lag phase in theavailability of nutrients, thus significantly reducing the need forrapid insulin response.

Studies also indicate that GLP-1 can promote cell differentiation andreplication, which in turn aids in the preservation of pancreatic isletcells and an increase in β-cell mass (See, e.g., Andreasen et al., 1994,Digestion 55:221-228; Wang, et al., 1997, J. Clin. Invest. 99:2883-2889;Mojsov, 1992, Int. J. Pep. Prot. Res. 40:333-343; and Xu et al., 1999,Diabetes 48:2270-2276). Evidence also indicates that GLP-1 can increasesatiety and decrease food intake (see, e.g., Toft-Nielsen et al., 1999,Diabetes Care 22:1137-1143; Flint et al., 1998, J. Clin. Invest.101:515-520; Gutswiller et al., 1999 Gut 44:81-86). Other researchindicates that GLP-1 induces β-cell-specific genes, including GLUT-1transporter, insulin receptor and hexokinase-1 (see, e.g., Perfetti andMerkel, 2000, Eur. J. Endocrinol. 143:717-725). Such induction couldreverse glucose intolerance often associated with aging. Because itplays a key role in regulating metabolic homeostasis, GLP-1 is anattractive target for treating a variety of metabolic disorders,including diabetes, obesity and metabolic syndrome.

Glucagon-like peptide-1 (GLP-1) is a hormone that stimulates insulinsecretion and simultaneously decreases glucagon secretion. Theinsulinotropic effect is glucose dependent. Because GLP-1 stimulatesinsulin secretion primarily at elevated glucose levels, GLP-1 therapy oftype 2 diabetes may present a low risk of hypoglycemia. GLP-1 can alsodecrease hepatic glucose production indirectly, delay gastric emptying,and suppress appetite in type 2 diabetic patients. This array of effectsgives GLP-1 the potential to be an efficacious and safe glucose-loweringagent for type 2 diabetes. In addition, GLP-1 has been shown tostimulate the differentiation of islet progenitor cells intoinsulin-producing cells and may be important for β-cell neogenesis.Short-term (12-h) infusion of GLP-1 as well as 6-week continuoussubcutaneous infusion of GLP-1 has been shown to significantly improveinsulin secretion in type 2 diabetic patients. While the main target ofaction of GLP-1 is the islet, where the hormone stimulates insulinsecretion, promotes beta cell proliferation and neogenesis, and inhibitsglucagon secretion, GLP-1 receptors are also expressed outside theislets, increasing the likelihood that GLP-1 also plays a role in otherorgans. These functions are mainly the inhibition of gastric emptying,gastric acid secretion and exocrine pancreatic secretion, indicatingthat the hormone acts as an enterogastrone—a hormone released from thedistal portion of the small intestine that inhibits proximalgastrointestinal events. Another important action of GLP-1 is to inducesatiety. Other effects of the hormone include cardioprotection,neuroprotection, induction of learning and memory, stimulation ofafferent, sensory nerves, stimulation of surfactant production in thelung, dilatation of pulmonary vessels, induction of diuresis, and alsounder some conditions, induction of antidiabetic actions unrelated toislet function. Thus, GLP-1 clearly has several manifestations ofpharmacologic activity. (See, e.g., Vrang et al., Characterization ofbrainstem preproglucagon progections to the paraventricular anddorsomedial hypothalamic nuclei, Brain Res. 1149:118-26 (2007); Korneret al., GLP-1 receptor expression in human tumors anf human normaltissues:potential for in vivo targeting, J. Nucl. Med. 48(5):736-43(2007)).

Glucagonlike peptide-2 (GLP-2), a product of the posttranslationalprocessing of proglucagon, has been shown to enhance mucosal mass andfunction in both normal intestine and in the residual intestine aftermassive small bowel resection. Activation of glucagon-like peptide-2receptor (GLP-2R) signaling by GLP-2 and GLP-2 mimetic protein analogspromotes expansion of the mucosal epithelium indirectly via activationof growth and anti-apoptotic pathways. GLP-2 and GLP-2(GLP-2alpha)-mimetic analogs can enhance mucosal mass in small intestineafter ischemia and reperfusion (I/R) injury. (See, e.g., Prasad et al.,Glucagonlike peptide-2 analogue enhances intestinal mucosal mass afterischemia and reperfusion, J. Pediatr. Surg. 2000 February; 35(2):357-59(2000).

Therapeutic Uses of Bradykinin B1 Receptor Antagonist Molecules

Bradykinin B1 receptor antagonist compounds of the present invention areuseful in the treatment, amelioration and/or prevention of diseases,disorders, medical conditions and symptoms mediated by the B1 receptor,e.g., in the prevention or treatment of inflammation and chronic pain(including, but not limited to, inflammatory pain and associatedhyperalgesia and allodynia). The fusion proteins and/or conjugatedfusion proteins of the invention also have therapeutic value for theprevention or treatment of other painful conditions associated with ormediated by B1 activation, including, but not limited to, thalamic painsyndrome, diabetes, toxins and chemotherapy, septic shock, arthritis,mixed-vascular and non-vascular syndromes, general inflammation,arthritis, rheumatic diseases, lupus, osteoarthritis, inflammatory boweldisorders, inflammatory eye disorders, inflammatory or unstable bladderdisorders, psoriasis, skin complaints with inflammatory components,sunburn, carditis, inflammatory bowel disease, dermatitis, myositis,neuritis, collagen vascular diseases, chronic inflammatory conditions,epithelial tissue damage or dysfunction, herpes simplex, diabeticneuropathy pain, post-herpetic neuralgia, causalgia, sympatheticallymaintained pain, deafferentation syndromes, tension headache, angina,migraine, surgical pain, disturbances of visceral motility atrespiratory, genitourinary, gastrointestinal or vascular regions,wounds, burns, allergic rhinitis, asthma, allergic skin reactions,pruritis, vitiligo, general gastrointestinal disorders, colitis, gastriculceration, duodenal ulcers, or vasomotor or allergic rhinitis.

The invention also provides for the use of the inventive bradykinin B1receptor antagonist fusion proteins and/or conjugated recombinant fusionproteins of the present invention for the prevention or treatment ofacute pain, dental pain, back pain, lower back pain, pain from trauma,surgical pain, pain resulting from amputation or abscess, causalgia,demyelinating diseases, trigeminal neuralgia, cancer, chronicalcoholism, stroke, thalamic pain syndrome, diabetes, acquired immunedeficiency syndrome (“AIDS”), toxins and chemotherapy, general headache,migraine, cluster headache, mixed-vascular and non-vascular syndromes,tension headache, general inflammation, arthritis, rheumatic diseases,lupus, osteoarthritis, inflammatory bowel disorders, inflammatory eyedisorders, inflammatory or unstable bladder disorders, psoriasis, skincomplaints with inflammatory components, sunburn, carditis, dermatitis,myositis, neuritis, collagen vascular diseases, chronic inflammatoryconditions, inflammatory pain and associated hyperalgesia and allodynia,neuropathic pain and associated hyperalgesia and allodynia, diabeticneuropathy pain, causalgia, sympathetically maintained pain,deafferentation syndromes, asthma, allergic rhinitis, epithelial tissuedamage or dysfunction, herpes simplex, post-herpetic neuralgia,disturbances of visceral motility at respiratory, genitourinary,gastrointestinal or vascular regions, wounds, burns, allergic skinreactions, pruritis, vitiligo, general gastrointestinal disorders,colitis, gastric ulceration, duodenal ulcers, and bronchial disorders.

Therapeutic Uses of PTH Antagonist or Agonist Molecules.

PTH agonist fusion proteins of this invention have pharmacologicactivity resulting from their interaction with PTH-1 receptor or PTH-2receptor. Mannstadt et al. (1999), Am. J. Physiol. 277. 5Pt 2. F665-75.PTH and agonists thereof increase bone resorption, increase renalcalcium reabsorption, decrease epidermal proliferation, and decreasehair growth. Holick et al. (1994) Proc. Natl. Sci. USA 91 (17): 8014-6;Schilli et al. (1997), J. Invest. Dermatol. 108(6): 928-32. Thus,antagonists of PTH-1 receptor and/or PTH-2 receptor are useful intreating:

primary and secondary hyperparathyroidism;hypercalcemia, including hypercalcemia resulting from solid tumors(breast, lung and kidney) and hematologic malignacies (multiple myeloma,lymphoma and leukemia); idiopathic hypercalcemia, and hypercalcemiaassociated with hyperthyroidism and renal function disorders;tumor metastases, particularly metastases to bone, and particularlyrelated to breast and prostatecancer;cachexia and anorexia, particularly as associated with cancer;osteopenia that is related to or aggravated by aberrant PTH receptorsignaling, including various forms of osteoporosis, such as:primary osteoporosis;post-menopausal and age-related osteoporosis;endocrine osteoporosis (hyperthyroidism, hyperparathyroidism, Cushing'ssyndrome, and acromegaly);hereditary and congenital forms of osteoporosis (e.g., osteogenesisimperfecta, homocystinuria, Menkes' syndrome, and Riley-Day syndrome);osteoporosis due to immobilization of extremities;osteoporosis secondary to other disorders, such as hemochromatosis,hyperprolactinemia, anorexia nervosa, thyrotoxicosis, diabetes mellitus,celiac disease, inflammatory bowel disease, primary biliary cirrhosis,rheumatoid arthritis, ankylosing spondylitis, multiple myeloma,lymphoproliferative diseases, and systemic mastocytosis;osteoporosis secondary to surgery (e.g., gastrectomy) or to drugtherapy, such as chemotherapy, anticonvulsant therapy, immunosuppressivetherapy, and anticoagulant therapy;osteoporosis secondary to glucocorticosteroid treatment for suchdiseases as rheumatoid arthritis (RA), systemic lupus erythematosus(SLE), asthma, temporal arteritis, vasculitis, chronic obstructivepulmonary disease, polymyalgia rheumatica, polymyositis, chronicinterstitial lung disease;osteoporosis secondary to glucocorticosteroid and/or immunomodulatorytreatment to prevent organ rejection following organ transplant such askidney, liver, lung, heart transplants;osteoporosis due to submission to microgravity, such as observed duringspace travel;osteoporosis associated with malignant disease, such as breast cancer,prostate cancer;Paget's disease of bone (osteitis deformans) in adults and juveniles;osteomyelitis, or an infectious lesion in bone, leading to bone loss;osteopenia following surgery, induced by steroid administration, andassociated with disorders of the small and large intestine and withchronic hepatic and renal diseases.

Osteonecrosis, or bone cell death, associated with traumatic injury ornontraumatic necrosis associated with Gaucher's disease, sickle cellanemia, systemic lupus erythematosus, rheumatoid arthritis, periodontaldisease, osteolytic metastasis, and other conditions;

alopecia (deficient hair growth or partial or complete hair loss),including androgenic alopecia (male pattern baldness), toxic alopecia,alopecia senilis, alopecia greata, alopecia pelada, andtrichotillomania;and the like.

There are other conditions wherein a patient would benefit from theactivity of PTH or PTHrP. For those indications, PTH receptor agonistsare useful as a therapeutic treatment. In particular, such indicationsinclude fracture repair (including healing of non-union fractures),osteopenia, including various forms of osteoporosis, such as:

primary osteoporosis;post-menopausal and age-related osteoporosis; endocrine osteoporosis(hyperthyroidism, Cushing's syndrome, and acromegaly);hereditary and congenital forms of osteoporosis (e.g., osteogenesisimperfecta, homocystinuria, Menkes' syndrome, and Riley-Day syndrome);osteoporosis due to immobilization of extremities;osteoporosis secondary to other disorders, such as hemochromatosis,hyperprolactinemia, anorexia nervosa, thyrotoxicosis, diabetes mellitus,celiac disease, inflammatory bowel disease, primary biliary cirrhosis,rheumatoid arthritis, ankylosing spondylitis, multiple myeloma,lymphoproliferative diseases, and systemic mastocytosis;osteoporosis secondary to surgery (e.g., gastrectomy) or to drugtherapy, such as chemotherapy, anticonvulsant therapy, immunosuppressivetherapy, and anticoagulant therapy;osteoporosis secondary to glucocorticosteroid treatment for diseasessuch as RA, SLE, asthma, temporal arteritis, vasculitis, chronicobstructive pulmonary disease, polymyalgia rheumatica, polymyositis,chronic interstitial lung disease;osteoporosis secondary to glucocorticosteroid and/or immunomodulatorytreatment to prevent organ rejection following organ transplant such askidney, liver, lung, heart transplants;osteoporosis due to submission to microgravity, such as observed duringspace travel;osteoporosis associated with malignant disease, such as breast cancer,prostate cancer;PTH agonists with extended half-life (e.g., those linked to Fc domains)may be used with an inhibitor of bone resorption. Inhibitors of boneresorption include OPG and OPG derivatives, OPG-L (RANKL) antibody,calcitonin (e.g., Miacalcin®, Calcimar®), bisphosphonates (e.g., APD,alendronate, risedronate, etidronate, pamidronate, tiludronate,clodronate, neridronate, ibandronate, zoledronate), estrogens (e.g.,Premarin®, Estraderm®, Prempro®, Alora®, Climara®, Vivelle®, Estratab®Ogen®), selective estrogen receptor modulators (e.g., raloxifene,droloxifene, lasofoxifene), tibolone, and the like. Exemplary boneresorption inhibitors are described in WO98/46751 and WO97/23614, whichare hereby incorporated by reference in their entireties.

Therapeutic Uses of EPO-Mimetic Molecules

The EPO-mimetic compounds of the invention are useful for treatingdisorders characterized by low red blood cell levels. Included in theinvention are methods of modulating the endogenous activity of an EPOreceptor in a mammal, preferably methods of increasing the activity ofan EPO receptor. In general, any condition treatable by erythropoietin,such as anemia, may also be treated by the EPO-mimetic compounds of theinvention. These compounds are administered by an amount and route ofdelivery that is appropriate for the nature and severity of thecondition being treated and may be ascertained by one skilled in theart. Preferably, administration is by injection, either subcutaneous,intramuscular, or intravenous.

Therapeutic Uses of TPO-Mimetic Compounds

For the TPO-mimetic compounds, one can utilize such standard assays asthose described in WO95/26746 entitled “Compositions and Methods forStimulating Megakaryocyte Growth and Differentiation.” The conditions tobe treated are generally those that involve an existingmegakaryocyte/platelet deficiency or an expected megakaryocyte/plateletdeficiency (e.g., because of planned surgery or platelet donation). Suchconditions will usually be the result of a deficiency (temporary orpermanent) of active Mpl ligand in vivo. The generic term for plateletdeficiency is thrombocytopenia, and hence the methods and compositionsof the present invention are generally available for treatingthrombocytopenia in patients in need thereof.

Thrombocytopenia (platelet deficiencies) may be present for variousreasons, including chemotherapy and other therapy with a variety ofdrugs, radiation therapy, surgery, accidental blood loss, and otherspecific disease conditions. Exemplary specific disease conditions thatinvolve thrombocytopenia and may be treated in accordance with thisinvention are: aplastic anemia, idiopathic thrombocytopenia, metastatictumors which result in thrombocytopenia, systemic lupus erythematosus,splenomegaly, Fanconi's syndrome, vitamin B12 deficiency, folic aciddeficiency, May-Hegglin anomaly, Wiskott-Aldrich syndrome, andparoxysmal nocturnal hemoglobinuria. Also, certain treatments for AIDSresult in thrombocytopenia (e.g., AZT). Certain wound healing disordersmight also benefit from an increase in platelet numbers.

With regard to anticipated platelet deficiencies, e.g., due to futuresurgery, a compound of the present invention could be administeredseveral days to several hours prior to the need for platelets. Withregard to acute situations, e.g., accidental and massive blood loss, acompound of this invention could be administered along with blood orpurified platelets.

The TPO-mimetic compounds of this invention may also be useful instimulating certain cell types other than megakaryocytes if such cellsare found to express Mpl receptor. Conditions associated with such cellsthat express the Mpl receptor, which are responsive to stimulation bythe Mpl ligand, are also within the scope of this invention.

The TPO-mimetic compounds of this invention may be used in any situationin which production of platelets or platelet precursor cells is desired,or in which stimulation of the c-Mpl receptor is desired. Thus, forexample, the compounds of this invention may be used to treat anycondition in a mammal wherein there is a need of platelets,megakaryocytes, and the like. Such conditions are described in detail inthe following exemplary sources: WO95/26746; WO95/21919; WO95/18858;WO95/21920 and are incorporated herein by reference in their entireties.

The TPO-mimetic compounds of this invention may also be useful inmaintaining the viability or storage life of platelets and/ormegakaryocytes and related cells. Accordingly, it could be useful toinclude an effective amount of one or more such compounds in acomposition containing such cells.

Therapeutic uses of Ang-2 binding molecules

Agents that modulate Ang-2 binding activity, or other cellular activity,may be used in combination with other therapeutic agents to enhancetheir therapeutic effects or decrease potential side effects.

In one aspect, the present invention provides reagents and methodsuseful for treating diseases and conditions characterized by undesirableor aberrant levels of Ang-2 activity in a cell. These diseases includecancers, and other hyperproliferative conditions, such as hyperplasia,psoriasis, contact dermatitis, immunological disorders, and infertility.

The present invention also provides methods of treating cancer in ananimal, including humans, comprising administering to the animal aneffective amount of a specific binding agent, such as a peptibody, thatinhibits or decreases Ang-2 activity. The invention is further directedto methods of inhibiting cancer cell growth, including processes ofcellular proliferation, invasiveness, and metastasis in biologicalsystems. Methods include use of a compound of the invention as aninhibitor of cancer cell growth. Preferably, the methods are employed toinhibit or reduce cancer cell growth, invasiveness, metastasis, or tumorincidence in living animals, such as mammals. Methods of the inventionare also readily adaptable for use in assay systems, e.g., assayingcancer cell growth and properties thereof, as well as identifyingcompounds that affect cancer cell growth.

The cancers treatable by methods of the present invention preferablyoccur in mammals. Mammals include, for example, humans and otherprimates, as well as pet or companion animals such as dogs and cats,laboratory animals such as rats, mice and rabbits, and farm animals suchas horses, pigs, sheep, and cattle.

Tumors or neoplasms include growths of tissue cells in which themultiplication of the cells is uncontrolled and progressive. Some suchgrowths are benign, but others are termed malignant and may lead todeath of the organism. Malignant neoplasms or cancers are distinguishedfrom benign growths in that, in addition to exhibiting aggressivecellular proliferation, they may invade surrounding tissues andmetastasize. Moreover, malignant neoplasms are characterized in thatthey show a greater loss of differentiation (greater dedifferentiation),and of their organization relative to one another and their surroundingtissues. This property is also called “anaplasia.”

Neoplasms treatable by the present invention also include solid tumors,i.e., carcinomas and sarcomas. Carcinomas include those malignantneoplasms derived from epithelial cells that infiltrate (invade) thesurrounding tissues and give rise to metastases. Adenocarcinomas arecarcinomas derived from glandular tissue, or which form recognizableglandular structures. Another broad category or cancers includessarcomas, which are tumors whose cells are embedded in a fibrillar orhomogeneous substance like embryonic connective tissue. The inventionalso enables treatment of cancers of the myeloid or lymphoid systems,including leukemias, lymphomas and other cancers that typically do notpresent as a tumor mass, but are distributed in the vascular orlymphoreticular systems.

The ang-2 binding molecules of this invention are thus useful for thetreatment of a wide variety of cancers, including solid tumors andleukemias. Types of cancer or tumor cells amenable to treatmentaccording to the invention include, for example, ACTH-producing tumor;acute lymphocytic leukemia; acute nonlymphocytic leukemia; adenoma;cancer of the adrenal cortex; adenocarcinoma of the breast, prostate,and colon; ameloblastoma; apudoma; bladder cancer; brain cancer;branchioma; breast cancer; all forms of bronchogenic carcinoma of thelung; carcinoid heart disease; carcinoma (e.g., Walker, basal cell,basosquamous, Brown-Pearce, ductal, Ehrlich tumor, Krebs 2, merkel cell,mucinous, non-small cell lung, oat cell, papillary, scirrhous,bronchiolar, bronchogenic, squamous cell, and transitional cell);malignant carcinoid syndrome; immunoproliferative small lung cellcarcinoma; cementoma; cervical cancer; chondroblastoma; chondroma;chondrosarcoma; choristoma; chronic lymphocytic leukemia; chronicmyelocytic leukemia; colorectal cancer; chordoma; craniopharyngioma;cutaneous T-cell lymphoma; dysgerminoma; endometrial cancer; esophagealcancer; Ewing's sarcoma; fibroma; fibrosarcoma; gallbladder cancer;giant cell tumors; glioma; hairy cell leukemia; hamartoma; head and neckcancer; hepatoma; histiocytic disorders; histiocytosis; Hodgkin'slymphoma; Kaposi's sarcoma; kidney cancer; lipoma; liposarcoma; livercancer; lung cancer (small and non-small cell); malignant peritonealeffusion; malignant pleural effusion; melanoma; mesenchymoma;mesonephroma; mesothelioma; multiple myeloma; myosarcoma; myxoma;myxosarcoma; neuroblastoma; non-Hodgkin's lymphoma; odontoma; osteoma;osteosarcoma; ovarian cancer; ovarian (germ cell) cancer; pancreaticcancer; papilloma; penile cancer; plasmacytoma; prostate cancer;reticuloendotheliosis; retinoblastoma; skin cancer; soft tissue sarcoma;squamous cell carcinomas; stomach cancer; teratoma; testicular cancer;thymoma; thyroid cancer; trophoblastic neoplasms; uterine cancer;vaginal cancer; cancer of the vulva; Wilms' tumor.

Further, the following types of cancers may also be treated:cholangioma; cholesteatoma; cyclindroma; cystadenocarcinoma;cystadenoma; granulosa cell tumor; gynandroblastoma; hidradenoma; isletcell tumor; Leydig cell tumor; papilloma; Sertoli cell tumor; theca celltumor; leiomyoma; leiomyosarcoma; myoblastoma; myoma; myosarcoma;rhabdomyoma; rhabdomyosarcoma; ependymoma; ganglioneuroma; glioma;medulloblastoma; meningioma; neurilemmoma; neuroblastoma;neuroepithelioma; neurofibroma; neuroma; paraganglioma; paragangliomanonchromaffin; angiokeratoma; angiolymphoid hyperplasia witheosinophilia; angioma sclerosing; angiomatosis; glomangioma;hemangioendothelioma; hemangioma; hemangiopericytoma; hemangiosarcoma;lymphangioma; lymphangiomyoma; lymphangiosarcoma; pinealoma;carcinosarcoma; chondrosarcoma; cystosarcoma phyllodes; fibrosarcoma;hemangiosarcoma; leiomyosarcoma; leukosarcoma; liposarcoma;lymphangiosarcoma; myosarcoma; myxosarcoma; ovarian carcinoma;rhabdomyosarcoma; sarcoma; neoplasms; nerofibromatosis; and cervicaldysplasia.

Therapeutic Uses of NGF Binding Molecules

The NGF binding molecules may be used in the prevention or treatment ofNGF-related diseases and disorders. Such indications include but are notlimited to pain (including, but not limited to, inflammatory pain andassociated hyperalgesia and allodynia, neuropathic pain and associatedhyperalgesia and allodynia, diabetic neuropathy pain, causalgia,sympathetically maintained pain, deafferentation syndromes, acute pain,tension headache, migraine, dental pain, pain from trauma, surgicalpain, pain resulting from amputation or abscess, causalgia,demyelinating diseases, and trigeminal neuralgia). The peptides andmodified peptides of the invention have therapeutic value for theprevention or treatment of other diseases linked to NGF as a causativeagent, including, but not limited to, asthma, urge incontinence (i.e.,hyperactive bladder), psoriasis, cancer (especially, pancreatic cancerand melanoma), chronic alcoholism, stroke, thalamic pain syndrome,diabetes, acquired immune deficiency syndrome (“AIDS”), toxins andchemotherapy, general headache, migraine, cluster headache,mixed-vascular and non-vascular syndromes, general inflammation,arthritis, rheumatic diseases, lupus, osteoarthritis, inflammatory boweldisorders, inflammatory eye disorders, inflammatory or unstable bladderdisorders, psoriasis, skin complaints with inflammatory components,sunburn, carditis, dermatitis, myositis, neuritis, collagen vasculardiseases, chronic inflammatory conditions, asthma, epithelial tissuedamage or dysfunction, herpes simplex, disturbances of visceral motilityat respiratory, genitourinary, gastrointestinal or vascular regions,wounds, burns, allergic skin reactions, pruritis, vitiligo, generalgastrointestinal disorders, colitis, gastric ulceration, duodenalulcers, vasomotor or allergic rhinitis, or bronchial disorders.

Therapeutic Uses of Myostatin Binding Molecules

The myostatin binding agents of the present invention bind to myostatinand block or inhibit myostatin signaling within targeted cells. Thepresent invention provides methods and reagents for reducing the amountor activity of myostatin in an animal by administering an effectivedosage of one or more myostatin binding agents to the animal. In oneaspect, the present invention provides methods and reagents for treatingmyostatin-related disorders in an animal comprising administering aneffective dosage of one or more binding agents to the animal. Thesemyostatin-related disorders include but are not limited to various formsof muscle wasting, as well as metabolic disorders such as diabetes andrelated disorders, and bone degenerative diseases such as osteoporosis.

Muscle wasting disorders include dystrophies such as Duchenne's musculardystrophy, progressive muscular dystrophy, Becker's type musculardystrophy, Dejerine-Landouzy muscular dystrophy, Erb's musculardystrophy, and infantile neuroaxonal muscular dystrophy. For example,blocking myostatin through use of antibodies in vivo improved thedystrophic phenotype of the mdx mouse model of Duchenne musculardystrophy (Bogdanovich et al. (2002), Nature 420: 28).

Additional muscle wasting disorders arise from chronic disease such asamyotrophic lateral sclerosis, congestive obstructive pulmonary disease,cancer, AIDS, renal failure, and rheumatoid arthritis. For example,cachexia or muscle wasting and loss of body weight was induced inathymic nude mice by a systemically administered myostatin (Zimmers etal., supra). In another example, serum and intramuscular concentrationsof myostatin-immunoreactive protein was found to be increased in menexhibiting AIDS-related muscle wasting and was inversely related tofat-free mass (Gonzalez-Cadavid et al. (1998), PNAS USA 95:14938-14943). Additional conditions resulting in muscle wasting mayarise from inactivity due to disability such as confinement in awheelchair, prolonged bedrest due to stroke, illness, bone fracture ortrauma, and muscular atrophy in a microgravity environment (spaceflight). For example, plasma myostatin immunoreactive protein was foundto increase after prolonged bedrest (Zachwieja et al. J Gravit Physiol.6(2):11 (1999). It was also found that the muscles of rats exposed to amicrogravity environment during a space shuttle flight expressed anincreased amount of myostatin compared with the muscles of rats whichwere not exposed (Lalani et al. (2000), J. Endocrin. 167(3):417-28).

In addition, age-related increases in fat to muscle ratios, andage-related muscular atrophy appear to be related to myostatin. Forexample, the average serum myostatin-immunoreactive protein increasedwith age in groups of young (19-35 yr old), middle-aged (36-75 yr old),and elderly (76-92 yr old) men and women, while the average muscle massand fat-free mass declined with age in these groups (Yarasheski et al. JNutr Aging 6(5):343-8 (2002)). It has also been shown that myostatingene knockout in mice increased myogenesis and decreased adipogenesis(Lin et al. (2002), Biochem Biophys Res Commun 291(3):701-6, resultingin adults with increased muscle mass and decreased fat accumulation andleptin secretion.

In addition, myostatin has now been found to be expressed at low levelsin heart muscle and expression is upregulated after cardiomyocytes afterinfarct (Sharma et al. (1999), J Cell Physiol. 180(1):1-9). Therefore,reducing myostatin levels in the heart muscle may improve recovery ofheart muscle after infarct.

Myostatin also appears to influence metabolic disorders including type 2diabetes, noninsulin-dependent diabetes mellitus, hyperglycemia, andobesity. For example, lack of myostatin has been shown to improve theobese and diabetic phenotypes of two mouse models (Yen et al. supra). Inaddition, increasing muscle mass by reducing myostatin levels mayimprove bone strength and reduce osteoporosis and other degenerativebone diseases. It has been found, for example, that myostatin-deficientmice showed increased mineral content and density of the mouse humerusand increased mineral content of both trabecular and cortical bone atthe regions where the muscles attach, as well as increased muscle mass(Hamrick et al. (2002), Calcif Tissue Int 71(1): 63-8).

The present invention also provides methods and reagents for increasingmuscle mass in food animals by administering an effective dosage of themyostatin binding agent to the animal. Since the mature C-terminalmyostatin polypeptide is identical in all species tested, myostatinbinding agents would be expected to be effective for increasing musclemass and reducing fat in any agriculturally important species includingcattle, chicken, turkeys, and pigs.

The myostatin-binding molecules of the present invention may be usedalone or in combination with other therapeutic agents to enhance theirtherapeutic effects or decrease potential side effects. The molecules ofthe present invention possess one or more desirable but unexpectedcombination of properties to improve the therapeutic value of theagents. These properties include increased activity, increasedsolubility, reduced degradation, increased half-life, reduced toxicity,and reduced immunogenicity. Thus the molecules of the present inventionare useful for extended treatment regimes. In addition, the propertiesof hydrophilicity and hydrophobicity of the compounds of the inventionare well balanced, thereby enhancing their utility for both in vitro andespecially in vivo uses. Specifically, compounds of the invention havean appropriate degree of solubility in aqueous media that permitsabsorption and bioavailability in the body, while also having a degreeof solubility in lipids that permits the compounds to traverse the cellmembrane to a putative site of action, such as a particular muscle mass.

The myostatin-binding molecules of the present invention are useful fortreating a “subject” or any animal, including humans, when administeredin an effective dosages in a suitable composition.

In addition, the mystatin-binding molecules of the present invention areuseful for detecting and quantitating myostatin in a number of assays.These assays are described in detail in U.S. Ser. No. 10/742,379, filedDec. 19, 2003 (published as US 2004/0181033 A1).

In general, the myostatin-binding molecules of the present invention areuseful as capture agents to bind and immobilize myostatin in a varietyof assays, similar to those described, for example, in Asai, ed.,Methods in Cell Biology, 37, Antibodies in Cell Biology, Academic Press,Inc., New York (1993). The myostatin-binding molecule may be labeled insome manner or may react with a third molecule such as an anti-bindingmolecule antibody which is labeled to enable myostatin to be detectedand quantitated. For example, a myostatin-binding molecule or a thirdmolecule can be modified with a detectable moiety, such as biotin, whichcan then be bound by a fourth molecule, such as enzyme-labeledstreptavidin, or other proteins. (Akerstrom (1985), J Immunol 135:2589;Chaubert (1997), Mod Pathol 10:585).

Throughout any particular assay, incubation and/or washing steps may berequired after each combination of reagents. Incubation steps can varyfrom about 5 seconds to several hours, preferably from about 5 minutesto about 24 hours. However, the incubation time will depend upon theassay format, volume of solution, concentrations, and the like. Usually,the assays will be carried out at ambient temperature, although they canbe conducted over a range of temperatures.

Therapeutic Uses of BAFF-Binding Molecules.

BAFF-binding molecules of this invention may be particularly useful intreatment of B-cell mediated autoimmune diseases. In particular, theymay be useful in treating, preventing, ameliorating, diagnosing orprognosing lupus, including systemic lupus erythematosus (SLE), andlupus-associated diseases and conditions. Other preferred indicationsinclude B-cell mediated cancers, including B-cell lymphoma.

The compounds of this invention can also be used to treat inflammatoryconditions of the joints. Inflammatory conditions of a joint are chronicjoint diseases that afflict and disable, to varying degrees, millions ofpeople worldwide. Rheumatoid arthritis is a disease of articular jointsin which the cartilage and bone are slowly eroded away by aproliferative, invasive connective tissue called pannus, which isderived from the synovial membrane. The disease may involveperi-articular structures such as bursae, tendon sheaths and tendons aswell as extra-articular tissues such as the subcutis, cardiovascularsystem, lungs, spleen, lymph nodes, skeletal muscles, nervous system(central and peripheral) and eyes (Silberberg (1985), Anderson'sPathology, Kissane (ed.), II:1828). Osteoarthritis is a common jointdisease characterized by degenerative changes in articular cartilage andreactive proliferation of bone and cartilage around the joint.Osteoarthritis is a cell-mediated active process that may result fromthe inappropriate response of chondrocytes to catabolic and anabolicstimuli. Changes in some matrix molecules of articular cartilagereportedly occur in early osteoarthritis (Thonar et al. (1993),Rheumatic disease clinics of North America, Moskowitz (ed.), 19:635-657and Shinmei et al. (1992), Arthritis Rheum., 35:1304-1308). TALL-1,TALL-1R and modulators thereof are believed to be useful in thetreatment of these and related conditions.

BAFF-binding molecules may also be useful in treatment of a number ofadditional diseases and disorders, including acute pancreatitis; ALS;Alzheimer's disease; asthma; atherosclerosis; autoimmune hemolyticanemia; cancer, particularly cancers related to B cells;cachexia/anorexia; chronic fatigue syndrome; cirrhosis (e.g., primarybiliary cirrhosis); diabetes (e.g., insulin diabetes); fever;glomerulonephritis, including IgA glomerulonephritis and primaryglomerulonephritis; Goodpasture's syndrome; Guillain-Barre syndrome;graft versus host disease; Hashimoto's thyroiditis; hemorrhagic shock;hyperalgesia; inflammatory bowel disease; inflammatory conditions of ajoint, including osteoarthritis, psoriatic arthritis and rheumatoidarthritis; inflammatory conditions resulting from strain, sprain,cartilage damage, trauma, orthopedic surgery, infection or other diseaseprocesses; insulin-dependent diabetes mellitus; ischemic injury,including cerebral ischemia (e.g., brain injury as a result of trauma,epilepsy, hemorrhage or stroke, each of which may lead toneurodegeneration); learning impairment; lung diseases (e.g., ARDS);lupus, particularly systemic lupus erythematosus (SLE); multiplemyeloma; multiple sclerosis; Myasthenia gravis; myelogenous (e.g., AMLand CML) and other leukemias; myopathies (e.g., muscle proteinmetabolism, esp. in sepsis); neurotoxicity (e.g., as induced by HIV);osteoporosis; pain; Parkinson's disease; Pemphigus;polymyositis/dermatomyositis; pulmonary inflammation, includingautoimmune pulmonary inflammation; pre-term labor; psoriasis; Reiter'sdisease; reperfusion injury; septic shock; side effects from radiationtherapy; Sjogren's syndrome; sleep disturbance; temporal mandibularjoint disease; thrombocytopenia, including idiopathic thrombocytopeniaand autoimmune neonatal thrombocytopenia; tumor metastasis; uveitis; andvasculitis.

Combination Therapy.

The therapeutic methods, compositions and compounds of the presentinvention may also be employed, alone or in combination with othercytokines, soluble Mpl receptor, hematopoietic factors, interleukins,growth factors or antibodies in the treatment of disease statescharacterized by other symptoms as well as platelet deficiencies. It isanticipated that the inventive compound will prove useful in treatingsome forms of thrombocytopenia in combination with general stimulatorsof hematopoiesis, such as IL-3 or GM-CSF. Other megakaryocyticstimulatory factors, i.e., meg-CSF, stem cell factor (SCF), leukemiainhibitory factor (LIF), oncostatin M (OSM), or other molecules withmegakaryocyte stimulating activity may also be employed with Mpl ligand.Additional exemplary cytokines or hematopoietic factors for suchco-administration include IL-1 alpha, IL-1 beta, IL-2, IL-3, IL-4, IL-5,IL-6, IL-11, colony stimulating factor-1 (CSF-1), SCF, GM-CSF,granulocyte colony stimulating factor (G-CSF), EPO, interferon-alpha(IFN-alpha), consensus interferon, IFN-beta, or IFN-gamma. It mayfurther be useful to administer, either simultaneously or sequentially,an effective amount of a soluble mammalian Mpl receptor, which appearsto have an effect of causing megakaryocytes to fragment into plateletsonce the megakaryocytes have reached mature form. Thus, administrationof an inventive compound (to enhance the number of maturemegakaryocytes) followed by administration of the soluble Mpl receptor(to inactivate the ligand and allow the mature megakaryocytes to produceplatelets) is expected to be a particularly effective means ofstimulating platelet production. The dosage recited above would beadjusted to compensate for such additional components in the therapeuticcomposition. Progress of the treated patient can be monitored byconventional methods.

In cases where the inventive compounds are added to compositions ofplatelets and/or megakaryocytes and related cells, the amount to beincluded will generally be ascertained experimentally by techniques andassays known in the art. An exemplary range of amounts is 0.1 μg-1 mginventive compound per 10⁶ cells.

Therapeutics Incorporating Toxin Peptides.

Some embodiments of the inventive composition of matter incorporatetoxin peptides as additional functional moieties, which toxin peptidescan have pharmacologic activity resulting from the ability to bind toion channels of interest as agonists, mimetics or antagonists of thenative ligands of such ion channels of interest. Consequently suchembodiments of the inventive composition of matter can have utility inthe treatment of pathologies associated with ion channels. Heritablediseases that have a known linkage to ion channels (“channelopathies”)cover various fields of medicine, some of which include neurology,nephrology, myology and cardiology. A list of inherited disordersattributed to ion channels (channel types in parentheses) includes:

cystic fibrosis (Cl⁻ channel; CFTR);Dent's disease (proteinuria and hypercalciuria; CL channel; CLCN5);osteopetrosis (Cl⁻ channel; CLCN7); familial hyperinsulinemia (SUR1;KCNJ11; K channel);diabetes (KATP/SUR channel);Andersen syndrome (KCNJ2, Kir2.1 K channel);Bartter syndrome (KCNJ1; Kir1.1/ROMK; K channel);hereditary hearing loss (KCNQ4; K channel);hereditary hypertension (Liddle's syndrome; SCNN1; epithelial Nachannel);dilated cardiomyopathy (SUR2, K channel);

-   long-QT syndrome or cardiac arrhythmias (cardiac potassium and    sodium channels);    Thymothy syndrome (CACNA1C, Cav1.2);    myasthenic syndromes (CHRNA,CHRNB,CNRNE; nAChR), and a variety of    other myopathies;    hyperkalemic periodic paralysis (Na and K channels);    epilepsy (Na⁺ and K⁺ channels);    hemiplegic migraine (CACNA1A, Cav2.1 Ca²⁺ channel and ATP1A2);    central core disease (RYR1, RyR1; Ca²⁺ channel), and    paramyotonia and myotonia (Na⁺, Cl⁻ channels) (See L. J. Ptacek and    Y-H Fu (2004), Arch. Neurol. 61: 166-8; B. A. Niemeyer et al.    (2001), EMBO reports 21: 568-73; F. Lehmann-Horn and K. Jurkat-Rott    (1999), Physiol. Rev. 79: 1317-72.) Although the foregoing list    concerned disorders of inherited origin, molecules targeting the    channels cited in these disorders can also be useful in treating    related disorders of other, or indeterminate, origin.

In addition to the aforementioned disorders, evidence has also beenprovided supporting ion channels as targets for treatment of:

sickle cell anemia (IKCa1)—in sickle cell anemia, water loss fromerythrocytes leads to hemoglobin polymerization and subsequent hemolysisand vascular obstruction. The water loss is consequent to potassiumefflux through the so-called Gardos channel i.e., IKCa1. Therefore,block of IKCa1 is a potential therapeutic treatment for sickle cellanemia.glaucoma (BKCa),—in glaucoma the intraocular pressure is too highleading to optic nerve damage, abnormal eye function and possiblyblindness. Block of BKCa potassium channels can reduce intraocular fluidsecretion and increase smooth muscle contraction, possibly leading tolower intraocular pressure and neuroprotection in the eye;multiple sclerosis (Kv, KCa);psoriasis (Kv, KCa);arthritis (Kv, KCa);asthma (KCa, Kv);allergy(KCa, Kv);

COPD (KCa, Kv, Ca);

allergic rhinitis (KCa, Kv);pulmonary fibrosis;lupus (IKCa1, Kv);transplantation, GvHD (KCa, Kv);inflammatory bone resorption (KCa, Kv);periodontal disease (KCa, Kv);diabetes, type I (Kv), —type I diabetes is an autoimmune disease that ischaracterized by abnormal glucose, protein and lipid metabolism and isassociated with insulin deficiency or resistance. In this disease,Kv1.3-expressing T-lymphocytes attack and destroy pancreatic isletsleading to loss of beta-cells. Block of Kv1.3 decreases inflammatorycytokines In addition block of Kv1.3 facilitates the translocation ofGLUT4 to the plasma membrane, thereby increasing insulin sensitivity;obesity (Kv), —Kv1.3 appears to play a critical role in controllingenergy homeostasis and in protecting against diet-induced obesity.Consequently, Kv1.3 blockers could increase metabolic rate, leading togreater energy utilization and decreased body weight; restenosis (KCa,Ca²⁺),—proliferation and migration of vascular smooth muscle cells canlead to neointimal thickening and vascular restenosis. Excessiveneointimal vascular smooth muscle cell proliferation is associated withelevated expression of IKCa1. Therefore, block of IKCa1 could representa therapeutic strategy to prevent restenosis after angioplasty;ischaemia (KCa, Ca²⁺),—in neuronal or cardiac ischemia, depolarizationof cell membranes leads to opening of voltage-gated sodium and calciumchannels. In turn this can lead to calcium overload, which is cytotoxic.Block of voltage-gated sodium and/or calcium channels can reduce calciumoverload and provide cytoprotective effects. In addition, due to theircritical role in controlling and stabilizing cell membrane potential,modulators of voltage- and calcium-activated potassium channels can alsoact to reduce calcium overload and protect cells;renal incontinence (KCa), renal incontinence is associated withoveractive bladder smooth muscle cells. Calcium-activated potassiumchannels are expressed in bladder smooth muscle cells, where theycontrol the membrane potential and indirectly control the force andfrequency of cell contraction. Openers of calcium-activated potassiumchannels therefore provide a mechanism to dampen electrical andcontractile activity in bladder, leading to reduced urge to urinate;osteoporosis (Kv);pain, including migraine (Na_(v), TRP [transient receptor potentialchannels], P2X, Ca²⁺), N-type voltage-gated calcium channels are keyregulators of nociceptive neurotransmission in the spinal cord.Ziconotide, a peptide blocker of N-type calcium channels reducesnociceptive neurotransmission and is approved worldwide for thesymptomatic alleviation of severe chronic pain in humans. Novel blockersof nociceptor-specific N-type calcium channels would be improvedanalgesics with reduced side-effect profiles;hypertension (Ca²⁺),—L-type and T-type voltage-gated calcium channelsare expressed in vascular smooth muscle cells where they controlexcitation-contraction coupling and cellular proliferation. Inparticular, T-type calcium channel activity has been linked to neointimaformation during hypertension. Blockers of L-type and T-type calciumchannels are useful for the clinical treatment of hypertension becausethey reduce calcium influx and inhibit smooth muscle cell contraction;wound healing, cell migration serves a key role in wound healing.Intracellular calcium gradients have been implicated as importantregulators of cellular migration machinery in keratinocytes andfibroblasts. In addition, ion flux across cell membranes is associatedwith cell volume changes. By controlling cell volume, ion channelscontribute to the intracellular environment that is required foroperation of the cellular migration machinery. In particular, IKCa1appears to be required universally for cell migration. In addition,Kv1.3, Kv3.1, NMDA receptors and N-type calcium channels are associatedwith the migration of lymphocytes and neurons;stroke;

Alzheimer's Disease;

Parkenson's Disease (nACHR, Nav);

Bipolar Disorder (Nav, Cav);

cancer, many potassium channel genes are amplified and protein subunitsare upregulated in many cancerous condition. Consistent with apathophysiological role for potassium channel upregulation, potassiumchannel blockers have been shown to suppress proliferation of uterinecancer cells and hepatocarcinoma cells, presumably through inhibition ofcalcium influx and effects on calcium-dependent gene expression; and avariety of neurological, cardiovascular, metabolic and autoimmunediseases.

Both agonists and antagonists of ion channels can achieve therapeuticbenefit. Therapeutic benefits can result, for example, from antagonizingKv1.3, IKCa1, SKCa, BKCa, N-type or T-type Ca²⁺ channels and the like.Small molecule and peptide antagonists of these channels have been shownto possess utility in vitro and in vivo.

Compositions of this invention incorporating peptide antagonists of thevoltage-gated potassium channel Kv1.3, in particular recombinant fusionproteins comprising OSK1 peptide analogs, whether or not conjugated to ahalf-life extending moiety, are useful as immunosuppressive agents withtherapeutic value for autoimmune diseases. For example, such moleculesare useful in treating multiple sclerosis, type 1 diabetes, psoriasis,inflammatory bowel disease, and rheumatoid arthritis. (See, e.g., H.Wulff et al. (2003) J. Clin. Invest. 111, 1703-1713 and H. Rus et al.(2005) PNAS 102, 11094-11099; Beeton et al., Targeting effector memory Tcells with a selective inhibitor peptide of Kv1.3 channnels for therapyof autoimmune diseases, Molec. Pharmacol. 67(4):1369-81 (2005);1 Beetonet al. (2006), Kv1.3: therapeutic target for cell-mediated autoimmunedisease, electronic preprint at//webfiles.uci.edu/xythoswfs/webui/2670029.1). Inhibitors of thevoltage-gated potassium channel Kv1.3 have been examined in a variety ofpreclinical animal models of inflammation.

Small molecule and peptide inhibitors of Kv1.3 have been shown to blockdelayed type hypersensitivity responses to ovalbumin [C. Beeton et al.(2005) Mol. Pharmacol. 67, 1369] and tetanus toxoid [G. C. Koo et al.(1999) Clin. Immunol. 197, 99]. In addition to suppressing inflammationin the skin, inhibitors also reduced antibody production [G. C. Koo etal. (1997) J. Immunol. 158, 5120]. Kv1.3 antagonists have shown efficacyin a rat adoptive-transfer experimental autoimmune encephalomyelitis(AT-EAE) model of multiple sclerosis (MS). The Kv1.3 channel isoverexpressed on myelin-specific T cells from MS patients, lendingfurther support to the utility Kv1.3 inhibitors may provide in treatingMS. Inflammatory bone resorption was also suppressed by Kv1.3 inhibitorsin a preclinical adoptive-transfer model of periodontal disease [P.Valverde et al. (2004) J. Bone Mineral Res. 19, 155]. In this study,inhibitors additionally blocked antibody production to a bacterial outermembrane protein, —one component of the bacteria used to induce gingivalinflammation. Recently in preclinical rat models, efficacy of Kv1.3inhibitors was shown in treating pristane-induced arthritis and diabetes[C. Beeton et al. (2006) preprint available at//webfiles.uci.edu/xythoswfs/webui/_xy-2670029_(—)1]. The Kv1.3 channelis expressed on all subsets of T cells and B cells, but effector memoryT cells and class-switched memory B cells are particularly dependent onKv1.3 [H. Wulff et al. (2004) J. Immunol. 173, 776].GadS/insulin-specific T cells from patients with new onset type 1diabetes, myelin-specific T cells from MS patients and T cells from thesynovium of rheumatoid arthritis patients all overexpress Kv1.3 [C.Beeton et al. (2006) preprint at//webfiles.uci.edu/xythoswfs/webui/_xy-2670029_(—)1]. Because micedeficient in Kvl.3 gained less weight when placed on a high fat diet [J.Xu et al. (2003) Human Mol. Genet. 12, 551] and showed altered glucoseutilization [J. Xu et al. (2004) Proc. Natl. Acad. Sci. 101, 3112],Kvl.3 is also being investigated for the treatment of obesity anddiabetes. Breast cancer specimens [M. Abdul et al. (2003) AnticancerRes. 23, 3347] and prostate cancer cell lines [S. P. Fraser et al.(2003) Pflugers Arch. 446, 559] have also been shown to express Kv1.3,and Kv1.3 blockade may be of utility for treatment of cancer. Disordersthat can be treated with the inventive fusions proteins, involving Kv1.3inhibitor toxin peptide(s), include multiple sclerosis, type 1 diabetes,psoriasis, inflammatory bowel disease, contact-mediated dermatitis,rheumatoid arthritis, psoriatic arthritis, asthma, allergy, restinosis,systemic sclerosis, fibrosis, scleroderma, glomerulonephritis, Sjogrensyndrome, inflammatory bone resorption, transplant rejection,graft-versus-host disease, and systemic lupus erythematosus (SLE) andother forms of lupus.

Some of the cells that express the calcium-activated potassium ofintermediate conductance IKCa1 include T cells, B cells, mast cells andred blood cells (RBCs). T cells and RBCs from mice deficient in IKCa1show defects in volume regulation [T. Begenisich et al. (2004) J. Biol.Chem. 279, 47681]. Preclinical and clinical studies have demonstratedIKCa1 inhibitors utility in treating sickle cell anemia [J. W. Stockeret al. (2003) Blood 101, 2412; www.icagen.com]. Blockers of the IKCa1channel have also been shown to block EAE, indicating they may possessutility in treatment of MS [E. P. Reich et al. (2005) Eur. J. Immunol.35, 1027]. IgE-mediated histamine production from mast cells is alsoblocked by IKCa1 inhibitors [S. Mark Duffy et al. (2004) J. AllergyClin. Immunol. 114, 66], therefore they may also be of benefit intreating asthma. The IKCa1 channel is overexpressed on activated T and Blymphocytes [H. Wulff et al. (2004) J. Immunol. 173, 776] and thus mayshow utility in treatment of a wide variety of immune disorders. Outsideof the immune system, IKCa1 inhibitors have also shown efficacy in a ratmodel of vascular restinosis and thus might represent a new therapeuticstrategy to prevent restenosis after angioplasty [R. Kohler et al.(2003) Circulation 108, 1119]. It is also thought that IKCa1 antagonistsare of utility in treatment of tumor angiogenesis since inhibitorssuppressed endothelial cell proliferation and angionenesis in vivo [I.Grgic et al. (2005) Arterioscler. Thromb. Vasc. Biol. 25, 704]. The IKCa1 channel is upregulated in pancreatic tumors and inhibitors blockedproliferation of pancreatic tumor cell lines [H. Jager et al. (2004)Mol. Pharmacol. 65, 630]. IKCa1 antagonists may also represent anapproach to attenuate acute brain damage caused by traumatic braininjury [F. Mauler (2004) Eur. J. Neurosci. 20, 1761]. Disorders that canbe treated with the inventive recombinant fusion proteins comprisingIKCa1 inhibitors include multiple sclerosis, asthma, allergy, psoriasis,contact-mediated dermatitis, rheumatoid arthritis, psoriatic arthritis,type 1 diabetes, inflammatory bowel disease, fibrosis, scleroderma,glomerulonephritis, Sjogren syndrome, inflammatory bone resorption,systemic sclerosis, transplant rejection, graft-versus-host disease,systemic lupus erythematosus (SLE) and other forms of lupus, restinosis,pancreatic cancer, tumor angiogenesis and traumatic brain injury.

Accordingly, molecules of this invention incorporating peptideantagonists of the calcium-activated potassium channel of intermediateconductance, IKCa can be used to treat,

The diseases and pharmacologically active compositions described hereinare merely exemplary and in no way limit the range of inventivepharmacologically active compounds and compositions that can be preparedusing the inventive method or the diseases and disorders that can betreated with the benefit of the present invention.

Accordingly, the present invention also relates to the use of one ormore of the inventive compositions of matter in the manufacture of amedicament for the treatment or prevention of a disease, disorder, orother medical condition described herein.

Such pharmaceutical compositions can be configured for administration toa patient by a wide variety of delivery routes, e.g., an intravasculardelivery route such as by injection or infusion, subcutaneous,intramuscular, intraperitoneal, epidural, or intrathecal deliveryroutes, or for oral, enteral, pulmonary (e.g., inhalant), intranasal,transmucosal (e.g., sublingual administration), transdermal or otherdelivery routes and/or forms of administration known in the art. Theinventive pharmaceutical compositions may be prepared in liquid form, ormay be in dried powder form, such as lyophilized form. For oral orenteral use, the pharmaceutical compositions can be configured, forexample, as tablets, troches, lozenges, aqueous or oily suspensions,dispersible powders or granules, emulsions, hard or soft capsules,syrups, elixirs or enteral formulas.

Pharmaceutical Compositions

In General.

The present invention also provides pharmaceutical compositionscomprising the inventive composition of matter and a pharmaceuticallyacceptable carrier. Such pharmaceutical compositions can be configuredfor administration to a patient by a wide variety of delivery routes,e.g., an intravascular delivery route such as by injection or infusion,subcutaneous, intramuscular, intraperitoneal, epidural, or intrathecaldelivery routes, or for oral, enteral, pulmonary (e.g., inhalant),intranasal, transmucosal (e.g., sublingual administration), transdermalor other delivery routes and/or forms of administration known in theart. The inventive pharmaceutical compositions may be prepared in liquidform, or may be in dried powder form, such as lyophilized form. For oralor enteral use, the pharmaceutical compositions can be configured, forexample, as tablets, troches, lozenges, aqueous or oily suspensions,dispersible powders or granules, emulsions, hard or soft capsules,syrups, elixirs or enteral formulas.

In the practice of this invention the “pharmaceutically acceptablecarrier” is any physiologically tolerated substance known to those ofordinary skill in the art useful in formulating pharmaceuticalcompositions, including, any pharmaceutically acceptable diluents,excipients, dispersants, binders, fillers, glidants, anti-frictionalagents, compression aids, tablet-disintegrating agents (disintegrants),suspending agents, lubricants, flavorants, odorants, sweeteners,permeation or penetration enhancers, preservatives, surfactants,solubilizers, emulsifiers, thickeners, adjuvants, dyes, coatings,encapsulating material(s), and/or other additives singly or incombination. Such pharmaceutical compositions can include diluents ofvarious buffer content (e.g., Tris-HCl, acetate, phosphate), pH andionic strength; additives such as detergents and solubilizing agents(e.g., Tween® 80, Polysorbate 80), anti-oxidants (e.g., ascorbic acid,sodium metabisulfite), preservatives (e.g., Thimersol®, benzyl alcohol)and bulking substances (e.g., lactose, mannitol); incorporation of thematerial into particulate preparations of polymeric compounds such aspolylactic acid, polyglycolic acid, etc. or into liposomes. Hyaluronicacid can also be used, and this can have the effect of promotingsustained duration in the circulation. Such compositions can influencethe physical state, stability, rate of in vivo release, and rate of invivo clearance of the present proteins and derivatives. See, e.g.,Remington's Pharmaceutical Sciences, 18th Ed. (1990, Mack PublishingCo., Easton, Pa. 18042) pages 1435-1712, which are herein incorporatedby reference in their entirety. The compositions can be prepared inliquid form, or can be in dried powder, such as lyophilized form.Implantable sustained release formulations are also useful, as aretransdermal or transmucosal formulations. Additionally (oralternatively), the present invention provides compositions for use inany of the various slow or sustained release formulations ormicroparticle formulations known to the skilled artisan, for example,sustained release microparticle formulations, which can be administeredvia pulmonary, intranasal, or subcutaneous delivery routes. (See, e.g.,Murthy et al., Injectable compositions for the controlled delivery ofpharmacologically active compound, U.S. Pat. No. 6,887,487; Manning etal., Solubilization of pharmaceutical substances in an organic solventand preparation of pharmaceutical powders using the same, U.S. Pat. Nos.5,770,559 and 5,981,474; Lieberman et al., Lipophilic complexes ofpharmacologically active inorganic mineral acid esters of organiccompounds, U.S. Pat. No. 5,002,936; Gen, Formative agent of proteincomplex, US 2002/0119946 A1; Goldenberg et al., Sustained releaseformulations, WO 2005/105057 A1).

One can dilute the inventive compositions or increase the volume of thepharmaceutical compositions of the invention with an inert material.Such diluents can include carbohydrates, especially, mannitol,α-lactose, anhydrous lactose, cellulose, sucrose, modified dextrans andstarch. Certain inorganic salts may also be used as fillers, includingcalcium triphosphate, magnesium carbonate and sodium chloride. Somecommercially available diluents are Fast-Flo, Emdex, STA-Rx 1500,Emcompress and Avicell.

A variety of conventional thickeners are useful in creams, ointments,suppository and gel configurations of the pharmaceutical composition,such as, but not limited to, alginate, xanthan gum, or petrolatum, mayalso be employed in such configurations of the pharmaceuticalcomposition of the present invention. A permeation or penetrationenhancer, such as polyethylene glycol monolaurate, dimethyl sulfoxide,N-vinyl-2-pyrrolidone, N-(2-hydroxyethyl)-pyrrolidone, or3-hydroxy-N-methyl-2-pyrrolidone can also be employed. Useful techniquesfor producing hydrogel matrices are known. (E.g., Feijen, Biodegradablehydrogel matrices for the controlled release of pharmacologically activeagents, U.S. Pat. No. 4,925,677; Shah et al., BiodegradablepH/thermosensitive hydrogels for sustained delivery of biologicallyactive agents, WO 00/38651 A1). Such biodegradable gel matrices can beformed, for example, by crosslinking a proteinaceous component and apolysaccharide or mucopolysaccharide component, then loading with theinventive composition of matter to be delivered.

Liquid pharmaceutical compositions of the present invention that aresterile solutions or suspensions can be administered to a patient byinjection, for example, intramuscularly, intrathecally, epidurally,intravascularly (e.g., intravenously or intraarterially),intraperitoneally or subcutaneously. (See, e.g., Goldenberg et al.,Suspensions for the sustained release of proteins, U.S. Pat. No.6,245,740 and WO 00/38652 A1). Sterile solutions can also beadministered by intravenous infusion. The inventive composition can beincluded in a sterile solid pharmaceutical composition, such as alyophilized powder, which can be dissolved or suspended at a convenienttime before administration to a patient using sterile water, saline,buffered saline or other appropriate sterile injectable medium.

Implantable sustained release formulations are also useful embodimentsof the inventive pharmaceutical compositions. For example, thepharmaceutically acceptable carrier, being a biodegradable matriximplanted within the body or under the skin of a human or non-humanvertebrate, can be a hydrogel similar to those described above.Alternatively, it may be formed from a poly-alpha-amino acid component.(Sidman, Biodegradable, implantable drug delivery device, and processfor preparing and using same, U.S. Pat. No. 4,351,337). Other techniquesfor making implants for delivery of drugs are also known and useful inaccordance with the present invention.

In powder forms, the pharmaceutically acceptable carrier is a finelydivided solid, which is in admixture with finely divided activeingredient(s), including the inventive composition. For example, in someembodiments, a powder form is useful when the pharmaceutical compositionis configured as an inhalant. (See, e.g., Zeng et al., Method ofpreparing dry powder inhalation compositions, WO 2004/017918; Trunk etal., Salts of the CGRP antagonist BIBN4096 and inhalable powderedmedicaments containing them, U.S. Pat. No. 6,900,317).

One can dilute or increase the volume of the compound of the inventionwith an inert material. These diluents could include carbohydrates,especially mannitol, α-lactose, anhydrous lactose, cellulose, sucrose,modified dextrans and starch. Certain inorganic salts can also be usedas fillers including calcium triphosphate, magnesium carbonate andsodium chloride. Some commercially available diluents are Fast-Flo™,Emdex™, STA-Rx™ 1500, Emcompress™ and Avicell™

Disintegrants can be included in the formulation of the pharmaceuticalcomposition into a solid dosage form. Materials used as disintegrantsinclude but are not limited to starch including the commercialdisintegrant based on starch, Explotab™. Sodium starch glycolate,Amberlite™, sodium carboxymethylcellulose, ultramylopectin, sodiumalginate, gelatin, orange peel, acid carboxymethyl cellulose, naturalsponge and bentonite can all be used. Insoluble cationic exchange resinis another form of disintegrant. Powdered gums can be used asdisintegrants and as binders and these can include powdered gums such asagar, Karaya or tragacanth. Alginic acid and its sodium salt are alsouseful as disintegrants.

Binders can be used to hold the therapeutic agent together to form ahard tablet and include materials from natural products such as acacia,tragacanth, starch and gelatin. Others include methyl cellulose (MC),ethyl cellulose (EC) and carboxymethyl cellulose (CMC). Polyvinylpyrrolidone (PVP) and hydroxypropylmethyl cellulose (HPMC) could both beused in alcoholic solutions to granulate the therapeutic.

An antifrictional agent can be included in the formulation of thetherapeutic to prevent sticking during the formulation process.Lubricants can be used as a layer between the therapeutic and the diewall, and these can include but are not limited to; stearic acidincluding its magnesium and calcium salts, polytetrafluoroethylene(PTFE), liquid paraffin, vegetable oils and waxes. Soluble lubricantscan also be used such as sodium lauryl sulfate, magnesium laurylsulfate, polyethylene glycol of various molecular weights, Carbowax 4000and 6000.

Glidants that might improve the flow properties of the drug duringformulation and to aid rearrangement during compression might be added.The glidants can include starch, talc, pyrogenic silica and hydratedsilicoaluminate.

To aid dissolution of the compound of this invention into the aqueousenvironment a surfactant might be added as a wetting agent. Surfactantscan include anionic detergents such as sodium lauryl sulfate, dioctylsodium sulfosuccinate and dioctyl sodium sulfonate. Cationic detergentsmight be used and could include benzalkonium chloride or benzethoniumchloride. The list of potential nonionic detergents that could beincluded in the formulation as surfactants are lauromacrogol 400,polyoxyl 40 stearate, polyoxyethylene hydrogenated castor oil 10, 50 and60, glycerol monostearate, polysorbate 40, 60, 65 and 80, sucrose fattyacid ester, methyl cellulose and carboxymethyl cellulose. Thesesurfactants could be present in the formulation of the protein orderivative either alone or as a mixture in different ratios.

Oral Dosage Forms.

Also useful are oral dosage forms of the inventive compositionss. Ifnecessary, the composition can be chemically modified so that oraldelivery is efficacious. Generally, the chemical modificationcontemplated is the attachment of at least one moiety to the moleculeitself, where said moiety permits (a) inhibition of proteolysis; and (b)uptake into the blood stream from the stomach or intestine. Also desiredis the increase in overall stability of the compound and increase incirculation time in the body. Moieties useful as covalently attachedhalf-life extending moieties in this invention can also be used for thispurpose. Examples of such moieties include: PEG, copolymers of ethyleneglycol and propylene glycol, carboxymethyl cellulose, dextran, polyvinylalcohol, polyvinyl pyrrolidone and polyproline. See, for example,Abuchowski and Davis (1981), Soluble Polymer-Enzyme Adducts, Enzymes asDrugs (Hocenberg and Roberts, eds.), Wiley-Interscience, New York, N.Y.,pp 367-83; Newmark, et al. (1982), J. Appl. Biochem. 4:185-9. Otherpolymers that could be used are poly-1,3-dioxolane andpoly-1,3,6-tioxocane. Preferred for pharmaceutical usage, as indicatedabove, are PEG moieties.

For oral delivery dosage forms, it is also possible to use a salt of amodified aliphatic amino acid, such as sodiumN-(8-[2-hydroxybenzoyl]amino) caprylate (SNAC), as a carrier to enhanceabsorption of the therapeutic compounds of this invention. The clinicalefficacy of a heparin formulation using SNAC has been demonstrated in aPhase II trial conducted by Emisphere Technologies. See U.S. Pat. No.5,792,451, “Oral drug delivery composition and methods.”

In one embodiment, the pharmaceutically acceptable carrier can be aliquid and the pharmaceutical composition is prepared in the form of asolution, suspension, emulsion, syrup, elixir or pressurizedcomposition. The active ingredient(s) (e.g., the inventive compositionof matter) can be dissolved, diluted or suspended in a pharmaceuticallyacceptable liquid carrier such as water, an organic solvent, a mixtureof both, or pharmaceutically acceptable oils or fats. The liquid carriercan contain other suitable pharmaceutical additives such as detergentsand/or solubilizers (e.g., Tween 80, Polysorbate 80), emulsifiers,buffers at appropriate pH (e.g., Tris-HCl, acetate, phosphate),adjuvants, anti-oxidants (e.g., ascorbic acid, sodium metabisulfite),preservatives (e.g., Thimersol, benzyl alcohol), sweeteners, flavoringagents, suspending agents, thickening agents, bulking substances (e.g.,lactose, mannitol), colors, viscosity regulators, stabilizers,electrolytes, osmolutes or osmo-regulators. Additives can also beincluded in the formulation to enhance uptake of the inventivecomposition. Additives potentially having this property are for instancethe fatty acids oleic acid, linoleic acid and linolenic acid.

Useful are oral solid dosage forms, which are described generally inRemington's Pharmaceutical Sciences (1990), supra, in Chapter 89, whichis hereby incorporated by reference in its entirety. Solid dosage formsinclude tablets, capsules, pills, troches or lozenges, cachets orpellets. Also, liposomal or proteinoid encapsulation can be used toformulate the present compositions (as, for example, proteinoidmicrospheres reported in U.S. Pat. No. 4,925,673). Liposomalencapsulation can be used and the liposomes can be derivatized withvarious polymers (e.g., U.S. Pat. No. 5,013,556). A description ofpossible solid dosage forms for the therapeutic is given in Marshall,K., Modern Pharmaceutics (1979), edited by G. S. Banker and C. T.Rhodes, in Chapter 10, which is hereby incorporated by reference in itsentirety. In general, the formulation will include the inventivecompound, and inert ingredients that allow for protection against thestomach environment, and release of the biologically active material inthe intestine.

The composition of this invention can be included in the formulation asfine multiparticulates in the form of granules or pellets of particlesize about 1 mm. The formulation of the material for capsuleadministration could also be as a powder, lightly compressed plugs oreven as tablets. The therapeutic could be prepared by compression.

Colorants and flavoring agents can all be included. For example, theprotein (or derivative) can be formulated (such as by liposome ormicrosphere encapsulation) and then further contained within an edibleproduct, such as a refrigerated beverage containing colorants andflavoring agents.

In tablet form, the active ingredient(s) are mixed with apharmaceutically acceptable carrier having the necessary compressionproperties in suitable proportions and compacted in the shape and sizedesired.

The powders and tablets preferably contain up to 99% of the activeingredient(s). Suitable solid carriers include, for example, calciumphosphate, magnesium stearate, talc, sugars, lactose, dextrin, starch,gelatin, cellulose, polyvinylpyrrolidine, low melting waxes and ionexchange resins.

Controlled release formulation can be desirable. The composition of thisinvention can be incorporated into an inert matrix that permits releaseby either diffusion or leaching mechanisms e.g., gums. Slowlydegenerating matrices can also be incorporated into the formulation,e.g., alginates, polysaccharides. Another form of a controlled releaseof the compositions of this invention is by a method based on the Oros™therapeutic system (Alza Corp.), i.e., the drug is enclosed in asemipermeable membrane which allows water to enter and push drug outthrough a single small opening due to osmotic effects. Some entericcoatings also have a delayed release effect.

Other coatings can be used for the formulation. These include a varietyof sugars that could be applied in a coating pan. The therapeutic agentcould also be given in a film-coated tablet and the materials used inthis instance are divided into 2 groups. The first are the nonentericmaterials and include methylcellulose, ethyl cellulose, hydroxyethylcellulose, methylhydroxy-ethyl cellulose, hydroxypropyl cellulose,hydroxypropyl-methyl cellulose, sodium carboxymethyl cellulose,providone and the polyethylene glycols. The second group consists of theenteric materials that are commonly esters of phthalic acid.

A mix of materials might be used to provide the optimum film coating.Film coating can be carried out in a pan coater or in a fluidized bed orby compression coating.

Pulmonary Delivery Forms.

Pulmonary delivery of the inventive compositions is also useful. Theprotein (or derivative) is delivered to the lungs of a mammal whileinhaling and traverses across the lung epithelial lining to the bloodstream. (Other reports of this include Adjei et al., Pharma. Res. 7:565-9; Adjei et al. (1990), Internatl. J. Pharmaceutics 63: 135-44(leuprolide acetate); Braquet et al. (1989), J. Cardiovasc. Pharmacol.13 (suppl.5): s.143-146 (endothelin-1); Hubbard et al. (1989), AnnalsInt. Med. 3: 206-12 (α1-antitrypsin); Smith et al. (1989), J. Clin.Invest. 84: 1145-6 (α1-proteinase); Oswein et al. (March 1990),“Aerosolization of Proteins,” Proc. Symp. Resp. Drug Delivery II,Keystone, Colo. (recombinant human growth hormone); Debs et al. (1988),J. Immunol. 140: 3482-8 (interferon-γ and tumor necrosis factor a) andPlatz et al., U.S. Pat. No. 5,284,656 (granulocyte colony stimulatingfactor).

Useful in the practice of this invention are a wide range of mechanicaldevices designed for pulmonary delivery of therapeutic products,including but not limited to nebulizers, metered dose inhalers, andpowder inhalers, all of which are familiar to those skilled in the art.Some specific examples of commercially available devices suitable forthe practice of this invention are the Ultravent nebulizer, manufacturedby Mallinckrodt, Inc., St. Louis, Mo.; the Acorn II nebulizer,manufactured by Marquest Medical Products, Englewood, Colo.; theVentolin metered dose inhaler, manufactured by Glaxo Inc., ResearchTriangle Park, North Carolina; and the Spinhaler powder inhaler,manufactured by Fisons Corp., Bedford, Mass. (See, e.g., Helgesson etal., Inhalation device, U.S. Pat. No. 6,892,728; McDerment et al., Drypowder inhaler, WO 02/11801 A1; Ohki et al., Inhalant medicator, U.S.Pat. No. 6,273,086).

All such devices require the use of formulations suitable for thedispensing of the inventive compound. Typically, each formulation isspecific to the type of device employed and can involve the use of anappropriate propellant material, in addition to diluents, adjuvantsand/or carriers useful in therapy.

The inventive compound should most advantageously be prepared inparticulate form with an average particle size of less than 10 μm (ormicrons), most preferably 0.5 to 5 μm, for most effective delivery tothe distal lung.

Pharmaceutically acceptable excipients include carbohydrates such astrehalose, mannitol, xylitol, sucrose, lactose, and sorbitol. Otheringredients for use in formulations can include DPPC, DOPE, DSPC andDOPC. Natural or synthetic surfactants can be used. PEG can be used(even apart from its use in derivatizing the protein or analog).Dextrans, such as cyclodextran, can be used. Bile salts and otherrelated enhancers can be used. Cellulose and cellulose derivatives canbe used. Amino acids can be used, such as use in a buffer formulation.

Also, the use of liposomes, microcapsules or microspheres, inclusioncomplexes, or other types of carriers is contemplated.

Formulations suitable for use with a nebulizer, either jet orultrasonic, will typically comprise the inventive compound dissolved inwater at a concentration of about 0.1 to 25 mg of biologically activeprotein per mL of solution. The formulation can also include a bufferand a simple sugar (e.g., for protein stabilization and regulation ofosmotic pressure). The nebulizer formulation can also contain asurfactant, to reduce or prevent surface induced aggregation of theprotein caused by atomization of the solution in forming the aerosol.

Formulations for use with a metered-dose inhaler device will generallycomprise a finely divided powder containing the inventive compoundsuspended in a propellant with the aid of a surfactant. The propellantcan be any conventional material employed for this purpose, such as achlorofluorocarbon, a hydrochlorofluorocarbon, a hydrofluorocarbon, or ahydrocarbon, including trichlorofluoromethane, dichlorodifluoromethane,dichlorotetrafluoroethanol, and 1,1,1,2-tetrafluoroethane, orcombinations thereof. Suitable surfactants include sorbitan trioleateand soya lecithin. Oleic acid can also be useful as a surfactant. (See,e.g., Backstrom et al., Aerosol drug formulations containinghydrofluoroalkanes and alkyl saccharides, U.S. Pat. No. 6,932,962).

Formulations for dispensing from a powder inhaler device will comprise afinely divided dry powder containing the inventive compound and can alsoinclude a bulking agent, such as lactose, sorbitol, sucrose, mannitol,trehalose, or xylitol in amounts which facilitate dispersal of thepowder from the device, e.g., 50 to 90% by weight of the formulation.

Nasal Delivery Forms.

In accordance with the present invention, intranasal delivery of theinventive composition of matter and/or pharmaceutical compositions isalso useful, which allows passage thereof to the blood stream directlyafter administration to the inside of the nose, without the necessityfor deposition of the product in the lung. Formulations suitable forintransal administration include those with dextran or cyclodextran, andintranasal delivery devices are known. (See, e.g, Freezer, Inhaler, U.S.Pat. No. 4,083,368).

Transdermal and Transmucosal (e.g., Buccal) Delivery Forms).

In some embodiments, the inventive composition is configured as a partof a pharmaceutically acceptable transdermal or transmucosal patch or atroche. Transdermal patch drug delivery systems, for example, matrixtype transdermal patches, are known and useful for practicing someembodiments of the present pharmaceutical compositions. (E.g., Chien etal., Transdermal estrogen/progestin dosage unit, system and process,U.S. Pat. Nos. 4,906,169 and 5,023,084; Cleary et al., Diffusion matrixfor transdermal drug administration and transdermal drug deliverydevices including same, U.S. Pat. No. 4,911,916; Teillaud et al.,EVA-based transdermal matrix system for the administration of anestrogen and/or a progestogen, U.S. Pat. No. 5,605,702; Venkateshwaranet al., Transdermal drug delivery matrix for coadministering estradioland another steroid, U.S. Pat. No. 5,783,208; Ebert et al., Methods forproviding testosterone and optionally estrogen replacement therapy towomen, U.S. Pat. No. 5,460,820). A variety of pharmaceuticallyacceptable systems for transmucosal delivery of therapeutic agents arealso known in the art and are compatible with the practice of thepresent invention. (E.g., Heiber et al., Transmucosal delivery ofmacromolecular drugs, U.S. Pat. Nos. 5,346,701 and 5,516,523;Longenecker et al., Transmembrane formulations for drug administration,U.S. Pat. No. 4,994,439).

Buccal delivery of the inventive compositions is also useful. Buccaldelivery formulations are known in the art for use with peptides. Forexample, known tablet or patch systems configured for drug deliverythrough the oral mucosa (e.g., sublingual mucosa), include someembodiments that comprise an inner layer containing the drug, apermeation enhancer, such as a bile salt or fusidate, and a hydrophilicpolymer, such as hydroxypropyl cellulose, hydroxypropyl methylcellulose,hydroxyethyl cellulose, dextran, pectin, polyvinyl pyrrolidone, starch,gelatin, or any number of other polymers known to be useful for thispurpose. This inner layer can have one surface adapted to contact andadhere to the moist mucosal tissue of the oral cavity and can have anopposing surface adhering to an overlying non-adhesive inert layer.Optionally, such a transmucosal delivery system can be in the form of abilayer tablet, in which the inner layer also contains additionalbinding agents, flavoring agents, or fillers. Some useful systems employa non-ionic detergent along with a permeation enhancer. Transmucosaldelivery devices may be in free form, such as a cream, gel, or ointment,or may comprise a determinate form such as a tablet, patch or troche.For example, delivery of the inventive composition can be via atransmucosal delivery system comprising a laminated composite of, forexample, an adhesive layer, a backing layer, a permeable membranedefining a reservoir containing the inventive composition, a peel sealdisc underlying the membrane, one or more heat seals, and a removablerelease liner. (E.g., Ebert et al., Transdermal delivery system withadhesive overlay and peel seal disc, U.S. Pat. No. 5,662,925; Chang etal., Device for administering an active agent to the skin or mucosa,U.S. Pat. Nos. 4,849,224 and 4,983,395). These examples are merelyillustrative of available transmucosal drug delivery technology and arenot limiting of the present invention.

Dosages.

The dosage regimen involved in a method for treating the above-describedconditions will be determined by the attending physician, consideringvarious factors which modify the action of drugs, e.g. the age,condition, body weight, sex and diet of the patient, the severity of anyinfection, time of administration and other clinical factors. Generally,the daily regimen should be in the range of 0.1-1000 micrograms of theinventive compound per kilogram of body weight, preferably 0.1-150micrograms per kilogram.

The following working examples are illustrative and not to be construedin any way as limiting the scope of the present invention.

EXAMPLES Example 1 Expression and Bioactivity of Fusion Proteins

Human protein domains were selected for small size, in order to aid inhigh level expression in prokaryotic hosts, and also to provide anadvantage to the mass ratio of active peptide to inactive carrier. Thesmall size of the fusion protein is expected to result in a short serumhalf-life for the native molecule, which may allow for modulation of thepharmacokinetic profile of the molecule to fit the therapeutic need byattaching PEG moieties or other half-life extending moieties of variousmasses and configurations.

Selection of Small Pharmacologically Inactive Protein Domains.

Small protein domains from the following families were selected forfurther investigation: the CH₂ domain of IgG1, the 10th fibronectin IIIdomain, the villin headpiece domain, several SH3 domains, several PDZdomains, and several SH2 domains. The CH₂ domain was chosen to representthe immunoglobulin fold superfamily, since it is the only domain in theubiquitous IgG1 molecule that is not involved in dimerization. The 10thfibronectin III domain was also chosen to represent the immunoglobulinfold, since it is a stable domain and lacks the disulfide bonds found inmost other members of this family. Fibronectins are extracellularproteins involved in cell adhesion, cell motility, opsonization, woundhealing, and maintenance of cell shape. Three PDZ domains were chosenfrom divergent families of the 51 human PDZ domains for which structuralcoordinates were available at the Brookhaven Protein Databank (FIG. 1).PDZ domains are intracellular peptide binding domains that preferC-terminal peptides and often form signal transduction complexes. ThreeSH3 domains were chosen from divergent families of the 74 human SH3domains for which structural coordinates were available at theBrookhaven Protein Databank (FIG. 2). SH3 domains are intracellularproline motif (PxxP) recognition and binding domains. In addition, twoSH2 domains were chosen from divergent families of the 22 human SH2domains for which structural coordinates were available at theBrookhaven Protein Databank (FIG. 3). SH2 domains are intracellularphosphotyrosine recognition and binding domains. Taken together, thesedomains represent a wide array of protein structures with diversebiochemical properties.

Construct Assembly.

Two bacterial expression vectors were employed to express the fusionconstructs (pAMG21 and pET30). The pAMG21(BamH¹⁻) vector encodesresistance to kanamycin (“Kanr”) and contains an R100-derived origin ofreplication as well as multiple unique restriction sites suitable forcloning. Expression in the pAMG21 constructs is driven by the induciblepromoter luxPR from Vibrio fischeri. The pET30 vector (Novagen/EMDBiosciences, San Diego, Calif.) encodes Kanr and contains apBR322-derived origin of replication. Expression in pET30 is driven bythe inducible T7 promoter.

For OsK1 and ShK fusions, optimization, reduction of mRNA secondarystructure and subsequent gene synthesis was carried out. Genes encoded(i) an affinity purification tag, for convenience, comprising aninitiator methionine (M), two glycines (G₂), six histidines (H₆), andtwo or three glycines (G₃) (“M-G₂-H₆-G₃”; SEQ ID NO:49); (ii) the smallpharmacologically inactive protein domain, (iii) a ten-residue linkercomposed of a repeat of four glycines and one serine (“(G₄S)₂” or “L10”;SEQ ID NO:22) and finally the bioactive peptide, examples of which weretoxin peptides OSK1 and ShK. The following amino acid sequences areexamples of the encoded fusion proteins:

CH2-OsK1: SEQ ID NO: 80GGHHHHHHGGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISGGGGSGGGGSGVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//; FnIII-OsK1: SEQ ID NO: 81GGHHHHHHGGGTVSDVPRDLEVVAATPTSLLISWDAPAVTVRYYRITYGETGGNSPVQEFTVPGSKSTATISGLKPGVDYTITVYAVTGRGDSPASSKPISINYRTEGGGGSGGGGSGVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//; 1PHT-OsK1: SEQ ID NO: 82GGHHHHHHGGGSAEGYQYRALYDYKKEREEDIDLHLGDILTVNKGSLVALGFSDGQEARPEEIGWLNGYNETTGERGDFPGTYVEYIGRKKISPGGGGSGGGGSGVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//; 1N7F-OsK1: SEQ ID NO: 83GGHHHHHHGGGSSGAIIYTVELKRYGGPLGITISGTEEPFDPIIISSLTKGGLAERTGAIHIGDRILAINSSSLKGKPLSEAIHLLQMAGETVTLKIKKQTDAQSASSPGGGGSGGGGSGVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//; 1X2K-OsK1: SEQ ID NO: 84GGHHHHHHGGGKVFRALYTFEPRTPDELYFEEGDIIYITDMSDTNWWKGTSKGRTGLIPSNYVAEQGGGGSGGGGSGVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//; and 1UEZ-OsK1:SEQ ID NO: 85GGHHHHHHGGGPGEVRLVSLRRAKAHEGLGFSIRGGSEHGVGIYVSLVEPGSLAEKEGLRVGDQILRVNDKSLARVTHAEAVKALKGSKKLVLSVYSAGRIPGGGGSGGGGSGVIINVKCKISRQCLEPCKKAGMRFGKCMNGKCHCTPK//.

Additional nucleotides were added to the 5′ and 3′ ends incorporatingNdeI and EcoRI restriction sites. The final six nucleotides of the 10residue linker, GAATTC, were designed to encode glycine and serine aswell as providing a BamHI restriction site. Full nucleotide sequences ofthe genes are exemplified by the following.

M-G₂-H₆-G₃-10^(th)Fn3-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 62catatgggtggtcatcatcatcatcatcatggtggtggtaccgtaagcgatgtaccacgcgatctggaagtagtagctgccacaccaacctctttgctgatctcttgggacgcacctgcagttacagtccgctattatcgtattacgtatggagaaaccggtggcaacagtccagtacaagaatttaccgtgcctggttccaaaagtaccgcaacaatttcaggcctcaaaccaggtgttgattatacgattacagtttatgcggttaccggtcgtggcgattcacccgcatcaagtaaaccaatttctattaactatcgtacagaacgggggaggtagcggcggaggaggatccggagtcattatcaatgttaaatgtaaaatcagccgtcagtgtttagaaccatgtaaaaaagccggaatgcgctttggaaaatgtatgaatggtaaatgtcattgcaccccgaaataatgaattc//;M-G₂-H₆-G₃-PDZ(1N7F)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 63catatgggtggtcatcatcatcatcatcatggtggtggttccagcggtgcaattatctatacggtagaacttaaacgttacggtggtcctctgggtattacaatcagcggcacagaagaaccctttgatccaattattatttcatcgcttactaaaggtggtcttgctgaacgcacaggcgccattcatattggagatcgtattttagctatcaactcatcatcattaaaaggcaaaccgttatcagaagctattcacttattacaaatggcgggcgaaacagttacccttaaaatcaaaaaacaaaccgacgcacaatctgcaagtagtccggggggaggcggctcaggaggaggaggatccggtgttattatcaatgtcaaatgtaaaatttctcgtcagtgtttggaaccctgtaaaaaagccggtatgcgctttggaaaatgtatgaacggaaaatgtcactgtaccccaaaataatgaattc//;M-G₂-H₆-G₃-PDZ(1UEZ)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 64catatgggtggtcatcatcatcatcatcatggtggtggtccgggcgaagttcgtcttgttagtttacgtcgcgcaaaagcacatgaaggcttaggtttctcaattcgtggcggcagcgaacatggtgttggaatttatgtatccttagtagaacctggtagtttagccgaaaaagaaggcctgcgtgtcggcgatcaaatcttacgcgtcaacgataaatctttagcccgcgttactcatgccgaagccgttaaagcgttgaaaggtagcaaaaaattagttctgtctgtttattccgcaggtcgtattcctggtggtggaggaagtggtggtggtggatccggagtaattattaacgttaaatgtaaaatcagtcgtcaatgtttggaaccctgtaaaaaagctggaatgcggtttggaaaatgtatgaatggtaaatgtcactgtacccctaaataatgaattc//;M-G₂-H₆-G₃-PDZ(1WFV)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 65catatgggtggtcatcatcatcatcatcatggtggtggtcctcaagacttcgattactttactgttgatatggaaaaaggtgcaaaaggttttggtttctctattcgtggcggtcgtgaatataaaatggacttatatgtgttacgcttagctgaagacggacccgcaattcgtaacggacgtatgcgtgttggcgatcaaattattgaaattaatggcgaatcaactcgtgatatgacccatgcacgtgcgattgaacttattaaatctggaggacgtcgtgtacgcttactataaaacgtggtacaggtcaggttcccggtggcggcggcagtggtggtggtggatccggagttattatcaatgttaaatgtaaaattagtcgtcaatgcttagaaccttgtaaaaaagctggaatgcgctttggaaaatgcatgaacgggaaatgtcactgcacacctaaataatgaattc//; M-G₂-H₆-G₃-SH2(1AB2)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 66catatgggtggtcatcatcatcatcatcatggtggtggtaattctttagaaaaacattcatggtatcatggtcctgtatcacgtaacgcagccgaatatctcttatcttctggcattaacggtagttttttagtccgcgaatccgaatcttctcctggccaacgcagtatcagtctccgttatgaaggtcgtgtgtatcattatcgcatcaataccgcttcagatggtaaattatatgtttcctcggaaagtcgtttcaatacccttgcggaactcgttcatcatcattctactgtggcagatggtctcattacaacgttacattatcctgcacccggcggtggtggctctggtggtggcggatccggtgttattattaatgttaaatgtaaaattagtcgccaatgtcttgaaccttgtaaaaaagctggcatgcgctttggtaaatgtatgaacggaaaatgtcattgtaccccgaaataatgaattc//; M-G₂-H₆-G₃-SH2(1JYQ)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 67catatgggtggtcatcatcatcatcatcatggtggtggtccttggttttttggtaaaatcccacgtgcgaaagctgaagaaatgctctcaaaacaacgtcatgacggtgcattcttaattcgtgaaagtgaatctgctccaggtgattttagtttaagtgttaaatttggtaatgatgtccaacattttaaagtccttcgtgatggtgcgggtaaatattttttatgggtagtcaaattcaatagtcttaacgaacttgtcgattatcatcgttccaccagtgttagccgtaatcaacaaatttttctccgcgatattgaacaaggtggtggtggttcaggagggggcggatccggcgtaatcatcaatgtaaaatgtaaaatctctcgtcaatgtttagaaccgtgtaaaaaagcaggaatgcgtttcggtaaatgtatgaatggtaaatgtcattgtaccccaaaataatgaattc//;M-G₂-H₆-G₃-SH3(1PHT)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 68catatgggtggtcatcatcatcatcatcatggtggtggttcagcagaaggttatcaatatcgtgcattatatgattataaaaaagaacgtgaagaagatatcgacttacatctgggagacattttaactgttaataaaggaagcttagtcgctttaggatttagtgatgggcaagaggcacgccctgaagaaattggatggttgaatggttataatgaaacaaccggcgaacgtggtgactttccgggtacctatgtagaatatatcggtcgtaaaaaaattagcctggaggaggggggtctggaggtggtggatccggtgtaattatcaatgtaaaatgtaaaattagtcgtcaatgtttagaaccttgtaaaaaagcaggcatgcgctttggaaaatgtatgaacggtaaatgccattgcaccccaaaataatgaattc//;M-G₂-H₆-G₃-SH3(1WA7)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 69catatgggtggtcatcatcatcatcatcatggtggtggtccagaagaacaaggtgatattgtagttgattatatccttatgatggtattcatccagacgatttaagttttaaaaaaggtgaaaaaatgaaagtgttagaagaacatggagaatggtggaaggcaaaaagtttattaacgaaaaaagaaggttttattccgtctaattatgtggcaaaattaaatacaggaggtgggggtggtagtggggggggaggatccggtgtaattattaatgtaaaatgtaaaattagtcgtcaatgtttggaaccgtgtaaaaaagcaggtatgcgctttggtaaatgtatgaatggtaaatgtcattgcactccaaaataatgaattc//; M-G₂-H₆-G₃-SH3(1X2K)-(G₄S)₂-OsK1 (coding region underlined)SEQ ID NO: 70catatgggtggtcatcatcatcatcatcatggtggtggtaaagtttttcgcgcactttatacctttgaaccccgtaccccagatgaattatattttgaagaaggcgacattatttatattacggacatgtcagatactaattggtggaaaggaacaagcaaaggccgtactggactgatcccaagtaattacgtagcagaacaaggaggaggtggctcaggaggaggtggatccggtgtaattatcaatgtaaaatgtaaaatctctcgtcaatgcctggaaccctgtaaaaaagctggtatgcgctttggtaaatgtatgaatggtaaatgtcattgcacccctaaataatgaattc//;M-G₂-H₆-G₃-10^(th)Fn3-(G₄S)₂-ShK (coding region underlined)SEQ ID NO: 71catatgggtggtcatcatcatcatcatcatggtggtggtaccgtaagcgatgttccccgtgacctggaagtggttgcagcgacccctacctcattattaatcagttgggatgcacctgcagttacagttcggtattatcgtattacgtatggagagacaggcggcaactcaccagttcaagaatttaccgtcccgggctctaaatcaacagcaacaatttcaggcttaaaaccaggagtagattacacaattacagtatacgcagtaacaggtcgcggcgactccccagctagctcaaaacctatctctattaattatcgcaccgaaggtggcggaggttccggtggtggtggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-PDZ(1N7F)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 72catatgggtggtcatcatcatcatcatcatggtggtggttccagcggtgcaattatctatacggtagaacttaaacgttacggtggtcctctgggtattacaatcagcggcacagaagaaccctttgatccaattattatttcatcgcttactaaaggtggtcttgctgaacgcacaggcgccattcatattggagatcgtattttagctatcaactcatcatcattaaaaggcaaaccgttatcagaagctattcacttattacaaatggcgggcgaaacagttacccttaaaatcaaaaaacaaaccgacgcacaatctgcaagtagtccggggggaggcggctcaggaggaggaggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-PDZ(1UEZ)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 73catatgggtsgtcatcatcatcatcatcatggtggtggtccgggcgaagttcgtcttgttagtttacgtcgcgcaaaagcacatgaaggcttaggtttctcaattcgtggcggcagcgaacatggtgttggaatttatgtatccttagtagaacctggtagtttagccgaaaaagaaggcctgcgtgtcggcgatcaaatcttacgcgtcaacgataaatctttagcccgcgttactcatgccgaagccgttaaagcgttgaaaggtagcaaaaaattagttctgtctgtttattccgcaggtcgtattcctggtggtggaggaagtggtggtggtggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-PDZ(1WFV)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 74catatgggtggtcatcatcatcatcatcatggtggtggtcctcaagacttcgattactttactgttgatatggaaaaaggtgcaaaaggttttggtttctctattcgtggcggtcgtgaatataaaatggacttatatgtgttacgcttagctgaagacggacccgcaattcgtaacggacgtatgcgtgttggcgatcaaattattgaaattaatggcgaatcaactcgtgatatgacccatgcacgtgcgattgaacttattaaatctggaggacgtcgtgtacgcttactataaaacgtggtacaggtcaggttcccggtggcggcggcagtggtggtggtggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-SH2(1AB2)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 75catatgggtggtcatcatcatcatcatcatggtggtggtaattctttagaaaaacattcatggtatcatggtcctgtatcacgtaacgcagccgaatatctcttatcttctggcattaacggtagttttttagtccgcgaatccgaatcttctcctggccaacgcagtatcagtctccgttatgaaggtcgtgtgtatcattatcgcatcaataccgcttcagatggtaaattatatgtttcctcggaaagtcgtttcaatacccttgcggaactcgttcatcatcattctactgtggcagatggtctcattacaacgttacattatcctgcacccggcggtggtggctctggtggtggcggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-SH2(1JYQ)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 76catatgggtggtcatcatcatcatcatcatggtggtggtccttggttttttggtaaaatcccacgtgcgaaagctgaagaaatgctctcaaaacaacgtcatgacggtgcattcttaattcgtgaaagtgaatctgctccaggtgattttagtttaagtgttaaatttggtaatgatgtccaacattttaaagtccttcgtgatggtgcgggtaaatattttttatgggtagtcaaattcaatagtcttaacgaacttgtcgattatcatcgttccaccagtgttagccgtaatcaacaaatttttctccgcgatattgaacaaggtggtggtggttcaggagggggcggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-SH3(1PHT)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 77catatgggtggtcatcatcatcatcatcatggtggtggttcagcagaaggttatcaatatcgtgcattatatgattataaaaaagaacgtgaagaagatatcgacttacatctgggagacattttaactgttaataaaggaagcttagtcgctttaggatttagtgatgggcaagaggcacgccctgaagaaattggatggttgaatggttataatgaaacaaccggcgaacgtggtgactttccgggtacctatgtagaatatatcggtcgtaaaaaaattagccctggaggaggggggtctggaggtggtggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;M-G₂-H₆-G₃-SH3(1WA7)-(G₄S)₂-ShK (coding region underlined) SEQ ID NO: 78catatgggtggtcatcatcatcatcatcatggtggtggtccagaagaacaaggtgatattgtagttgattatatccttatgatggtattcatccagacgatttaagttttaaaaaaggtgaaaaaatgaaagtgttagaagaacatggagaatggtggaaggcaaaaagtttattaacgaaaaaagaaggttttattccgtctaattatgtggcaaaattaaatacaggaggtgggggtggtagtggggggggaggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//;and M-G₂-H₆-G₃-SH3(1X2K)-(G₄S)₂-ShK (coding region underlined)SEQ ID NO: 79catatgggtggtcatcatcatcatcatcatggtggtggtaaagtttttcgcgcactttatacctttgaaccccgtaccccagatgaattatattttgaagaaggcgacattatttatattacggacatgtcagatactaattggtggaaaggaacaagcaaaggccgtactggactgatcccaagtaattacgtagcagaacaaggaggaggtggctcaggaggaggtggatcctgcatcgatacaatccctaagtcccgctgtactgcctttcaatgcaaacactcaatgaaataccgtctcagtttctgtcgtaaaacctgtggcacctgttaatgaattc//.

The synthesized DNA was initially digested with NdeI and EcoRI, and thenligated into likewise treated pAMG21(BamHI⁻; Table 3).

TABLE 3 Nucleotide sequence of pAMG21 (BamHI⁻).gatcagcagtccccggaacatcgtagctgacgccttcgcgttgctcagttgtccaaccccggaaacgggaaaaagcaagttttccccgctcccggcgtttcaataactgaaaaccatactatttcacagtttaaatcacattaaacgacagtaatccccgttgatttgtgcgccaacacagatcttcgtcacaattctcaagtcgctgatttcaaaaaactgtagtatcctctgcgaaacgatccctgtttgagtattgaggaggcgagatgtcgcagacagaaaatgcagtgacttcctcattgagtcaaaagcggtttgtgcgcagaggtaagcctatgactgactctgagaaacaaatggccgttgttgcaagaaaacgtcttacacacaaagagataaaagtttttgtcaaaaatcctctgaaggatctcatggttgagtactgcgagagagaggggataacacaggctcagttcgttgagaaaatcatcaaagatgaactgcaaagactggatatactaaagtaaagactttactttgtggcgtagcatgctagattactgatcgtttaaggaattttgtggctggccacgccgtaaggtggcaaggaactggttctgatgtggatttacaggagccagaaaagcaaaaaccccgataatcttcttcaacttttgcgagtacgaaaagattaccggggcccacttaaaccgtatagccaacaattcagctatgcggggagtatagttatatgcccggaaaagttcaagacttctttctgtgctcgctccttctgcgcattgtaagtgcaggatggtgtgactgatcttcaccaaacgtattaccgccaggtaaagaacccgaatccggtgtttacaccccgtgaaggtgcaggaacgctgaagttctgcgaaaaactgatggaaaaggcggtgggcttcacttcccgttttgatttcgccattcatgtggcgcacgcccgttcgcgtgatctgcgtcgccgtatgccaccagtgctgcgtcgtcgggctattgatgcgctcttgcaggggctgtgtttccactatgacccgctggccaaccgcgtccagtgctccatcaccacgctggccattgagtgcggactggcgacggagtctgctgccggaaaactctccatcacccgtgccacccgtgccctgacgttcctgtcagagctgggactgattacctaccagacggaatatgacccgcttatcgggtgctacattccgaccgatatcacgttcacatctgcactgtttgctgccctcgatgtatcagaggaggcagtggccgccgcgcgccgcagccgtgtggtatgggaaaacaaacaacgcaaaaagcaggggctggataccctgggcatggatgaactgatagcgaaagcctggcgttttgttcgtgagcgttttcgcagttatcagacagagcttaagtcccgtggaataaagcgtgcccgtgcgcgtcgtgatgcggacagggaacgtcaggatattgtcaccctggtgaaacggcagctgacgcgcgaaatcgcggaagggcgcttcactgccaatcgtgaggcggtaaaacgcgaagttgagcgtcgtgtgaaggagcgcatgattctgtcacgtaaccgtaattacagccggctggccacagcttccccctgaaagtgacctcctctgaataatccggcctgcgccggaggcttccgcacgtctgaagcccgacagcgcacaaaaaatcagcaccacatacaaaaaacaacctcatcatccagcttctggtgcatccggccccccctgttttcgatacaaaacacgcctcacagacggggaattttgcttatccacattaaactgcaagggacttccccataaggttacaaccgttcatgtcataaagcgccatccgccagcgttacagggtgcaatgtatcttttaaacacctgtttatatctcctttaaactacttaattacattcatttaaaaagaaaacctattcactgcctgtccttggacagacagatatgcacctcccaccgcaagcggcgggcccctaccggagccgctttagttacaacactcagacacaaccaccagaaaaaccccggtccagcgcagaactgaaaccacaaagcccctccctcataactgaaaagcggccccgccccggtccgaagggccggaacagagtcgcttttaattatgaatgttgtaactacttcatcatcgctgtcagtcttctcgctggaagttctcagtacacgctcgtaagcggccctgacggcccgctaacgcggagatacgccccgacttcgggtaaaccctcgtcgggaccactccgaccgcgcacagaagctctctcatggctgaaagcgggtatggtctggcagggctggggatgggtaaggtgaaatctatcaatcagtaccggcttacgccgggcttcggcggttttactcctgtttcatatatgaaacaacaggtcaccgccttccatgccgctgatgcggcatatcctggtaacgatatctgaattgttatacatgtgtatatacgtggtaatgacaaaaataggacaagttaaaaatttacaggcgatgcaatgattcaaacacgtaatcaatatcgggggtgggcgaagaactccagcatgagatccccgcgctggaggatcatccagccggcgtcccggaaaacgattccgaagcccaacctttcatagaaggcggcggtggaatcgaaatctcgtgatggcaggttgggcgtcgcttggtcggtcatttcgaaccccagagtcccgctcagaagaactcgtcaagaaggcgatagaaggcgatgcgctgcgaatcgggagcggcgataccgtaaagcacgaggaagcggtcagcccattcgccgccaagctcttcagcaatatcacgggtagccaacgctatgtcctgatagcggtccgccacacccagccggccacagtcgatgaatccagaaaagcggccattttccaccatgatattcggcaagcaggcatcgccatgagtcacgacgagatcctcgccgtcgggcatgcgcgccttgagcctggcgaacagttcggctggcgcgagcccctgatgctcttcgtccagatcatcctgatcgacaagaccggcttccatccgagtacgtgctcgctcgatgcgatgtttcgcttggtggtcgaatgggcaggtagccggatcaagcgtatgcagccgccgcattgcatcagccatgatggatactttctcggcaggagcaaggtgagatgacaggagatcctgccccggcacttcgcccaatagcagccagtcccttcccgcttcagtgacaacgtcgagcacagctgcgcaaggaacgcccgtcgtggccagccacgatagccgcgctgcctcgtcctgcaattcattcaggacaccggacaggtcggtcttgacaaaaagaaccgggcgcccctgcgctgacagccggaacacggcggcatcagagcagccgattgtctgttgtgcccagtcatagccgaatagcctctccacccaagcggccggagaacctgcgtgcaatccatcttgttcaatcatgcgaaacgatcctcatcctgtctcttgatctgatcttgatcccctgcgccatcagatccttggcggcaagaaagccatccagtttactttgcagggcttcccaaccttaccagagggcgccccagctggcaattccggttcgcttgctgtccataaaaccgcccagtctagctatcgccatgtaagcccactgcaagctacctgctttctctttgcgcttgcgttttcccttgtccagatagcccagtagctgacattcatccggggtcagcaccgtttctgcggactggctttctacgtgttccgcttcctttagcagcccttgcgccctgagtgcttgcggcagcgtgaagctacatatatgtgatccgggcaaatcgctgaatattccttttgtctccgaccatcaggcacctgagtcgctgtctttttcgtgacattcagttcgctgcgctcacggctctggcagtgaatgggggtaaatggcactacaggcgccttttatggattcatgcaaggaaactacccataatacaagaaaagcccgtcacgggcttctcagggcgttttatggcgggtctgctatgtggtgctatctgactttttgctgttcagcagttcctgccctctgattttccagtctgaccacttcggattatcccgtgacaggtcattcagactggctaatgcacccagtaaggcagcggtatcatcaacaggcttacccgtcttactgtcgaagacgtgcgtaacgtatgcatggtctccccatgcgagagtagggaactgccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctcctgagtaggacaaatccgccgggagcggatttgaacgttgcgaagcaacggcccggagggtggcgggcaggacgcccgccataaactgccaggcatcaaattaagcagaaggccatcctgacggatggcctttttgcgtttctacaaactcttttgtttatttttctaaatacattcaaatatggacgtcgtacttaacttttaaagtatgggcaatcaattgctcctgttaaaattgctttagaaatactttggcagcggtttgttgtattgagtttcatttgcgcattggttaaatggaaagtgaccgtgcgcttactacagcctaatatttttgaaatatcccaagagctttttccttcgcatgcccacgctaaacattctttttctcttttggttaaatcgttgtttgatttattatttgctatatttatttttcgataattatcaactagagaaggaacaattaatggtatgttcatacacgcatgtaaaaataaactatctatatagttgtctttctctgaatgtgcaaaactaagcattccgaagccattattagcagtatgaatagggaaactaaacccagtgataagacctgatgatttcgcttattaattacatttggagattttttatttacagcattgttttcaaatatattccaattaatcggtgaatgattggagttagaataatctactataggatcatattttattaaattagcgtcatcataatattgcctccattttttagggtaattatccagaattgaaatatcagatttaaccatagaatgaggataaatgatcgcgagtaaataatattcacaatgtaccattttagtcatatcagataagcattgattaatatcattattgcttctacaggctttaattttattaattattctgtaagtgtcgtcggcatttatgtctttcatacccatctctttatccttacctattgtttgtcgcaagttttgcgtgttatatatcattaaaacggtaatagattgacatttgattctaataaattggatttttgtcacactattatatcgcttgaaatacaattgtttaacataagtacctgtaggatcgtacaggtttacgcaagaaaatggtttgttatagtcgattaatcgatttgattctagatttgttttaactaattaaaggaggaataacatatggttaacgcgttggaattcgagctcactagtgtcgacctgcagggtaccatggaagcttactcgaagatccgcggaaagaagaagaagaagaagaaagcccgaaaggaagctgagttggctgctgccaccgctgagcaataactagcataaccccttggggcctctaaacgggtcttgaggggttttttgctgaaaggaggaaccgctcttcacgctcttcacgcggataaataagtaacgatccggtccagtaatgacctcagaactccatctggatttgttcagaacgctcggttgccgccgggcgttttttattggtgagaatcgcagcaacttgtcgcgccaatcgagccatgtcgtcgtcaacgaccccccattcaagaacagcaagcagcattgagaactttggaatccagtccctcttccacctgctgaccg// SEQ ID NO: 57

This created the nine OSK1 fusions, as well as the first ShK fusion; tomake the remaining ShK fusions (actually [desArgl]ShK fusions), thetoxin DNA was first excised with BamHI and EcoRI digestion. Then the ShK(actually [desArgl]ShK peptide analog) coding sequence was ligateddownstream of the small domain fusion partners. In addition, several ofthe ShK (actually [desArg1]ShK) fusions were excised with NdeI/EcoRIdigestion and ligated to likewise digested pET30 DNA (Table 4).

TABLE 4 Nucleotide sequence of pET30.atccggatatagttcctcctttcagcaaaaaacccctcaagacccgtttagaggccccaaggggttatgctagttattgctcagcggtggcagcagccaactcagcttcctttcgggctttgttagcagccggatctcagtggtggtggtggtggtgctcgagtgcggccgcaagcttgtcgacggagctcgaattcggatccgatatcagccatggccttgtcgtcgtcgtcggtacccagatctgggctgtccatgtgctggcgttcgaatttagcagcagcggtttctttcataccagaaccgcgtggcaccagaccagaagaatgatgatgatgatggtgcatatgtatatctccttcttaaagttaaacaaaattatttctagaggggaattgttatccgctcacaattcccctatagtgagtcgtattaatttcgcgggatcgagatcgatctcgatcctctacgccggacgcatcgtggccggcatcaccggcgccacaggtgcggttgctggcgcctatatcgccgacatcaccgatggggaagatcgggctcgccacttcgggctcatgagcgcttgtttcggcgtgggtatggtggcaggccccgtggccgggggactgttgggcgccatctccttgcatgcaccattccttgcggcggcggtgctcaacggcctcaacctactactgggctgcttcctaatgcaggagtcgcataagggagagcgtcgagatcccggacaccatcgaatggcgcaaaacctttcgcggtatggcatgatagcgcccggaagagagtcaattcagggtggtgaatgtgaaaccagtaacgttatacgatgtcgcagagtatgccggtgtctcttatcagaccgtttcccgcgtggtgaaccaggccagccacgtttctgcgaaaacgcgggaaaaagtggaagcggcgatggcggagctgaattacattcccaaccgcgtggcacaacaactggcgggcaaacagtcgttgctgattggcgttgccacctccagtctggccctgcacgcgccgtcgcaaattgtcgcggcgattaaatctcgcgccgatcaactgggtgccagcgtggtggtgtcgatggtagaacgaagcggcgtcgaagcctgtaaagcggcggtgcacaatcttctcgcgcaacgcgtcagtgggctgatcattaactatccgctggatgaccaggatgccattgctgtggaagctgcctgcactaatgttccggcgttatttcttgatgtctctgaccagacacccatcaacagtattattttctcccatgaagacggtacgcgactgggcgtggagcatctggtcgcattgggtcaccagcaaatcgcgctgttagcgggcccattaagttctgtctcggcgcgtctgcgtctggctggctggcataaatatctcactcgcaatcaaattcagccgatagcggaacgggaaggcgactggagtgccatgtccggttttcaacaaaccatgcaaatgctgaatgagggcatcgttcccactgcgatgctggttgccaacgatcagatggcgctgggcgcaatgcgcgccattaccgagtccgggctgcgcgttggtgcggacatctcggtagtgggatacgacgataccgaagacagctcatgttatatcccgccgttaaccaccatcaaacaggattttcgcctgctggggcaaaccagcgtggaccgcttgctgcaactctctcagggccaggcggtgaagggcaatcagctgttgcccgtctcactggtgaaaagaaaaaccaccctggcgcccaatacgcaaaccgcctctccccgcgcgttggccgattcattaatgcagctggcacgacaggtttcccgactggaaagcgggcagtgagcgcaacgcaattaatgtaagttagctcactcattaggcaccgggatctcgaccgatgcccttgagagccttcaacccagtcagctccttccggtgggcgcggggcatgactatcgtcgccgcacttatgactgtcttctttatcatgcaactcgtaggacaggtgccggcagcgctctgggtcattttcggcgaggaccgctttcgctggagcgcgacgatgatcggcctgtcgcttgcggtattcggaatcttgcacgccctcgctcaagccttcgtcactggtcccgccaccaaacgtttcggcgagaagcaggccattatcgccggcatggcggccccacgggtgcgcatgatcgtgctcctgtcgttgaggacccggctaggctggcggggttgccttactggttagcagaatgaatcaccgatacgcgagcgaacgtgaagcgactgctgctgcaaaacgtctgcgacctgagcaacaacatgaatggtcttcggtttccgtgtttcgtaaagtctggaaacgcggaagtcagcgccctgcaccattatgttccggatctgcatcgcaggatgctgctggctaccctgtggaacacctacatctgtattaacgaagcgctggcattgaccctgagtgatttttctctggtcccgccgcatccataccgccagttgtttaccctcacaacgttccagtaaccgggcatgttcatcatcagtaacccgtatcgtgagcatcctctctcgtttcatcggtatcattacccccatgaacagaaatcccccttacacggaggcatcagtgaccaaacaggaaaaaaccgcccttaacatggcccgctttatcagaagccagacattaacgcttctggagaaactcaacgagctggacgcggatgaacaggcagacatctgtgaatcgcttcacgaccacgctgatgagctttaccgcagctgcctcgcgcgtttcggtgatgacggtgaaaacctctgacacatgcagctcccggagacggtcacagcttgtctgtaagcggatgccgggagcagacaagcccgtcagggcgcgtcagcgggtgttggcgggtgtcggggcgcagccatgacccagtcacgtagcgatagcggagtgtatactggcttaactatgcggcatcagagcagattgtactgagagtgcaccatatatgcggtgtgaaataccgcacagatgcgtaaggagaaaataccgcatcaggcgctatccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacatgtgagcaaaaggccagcaaaaggccaggaaccgtaaaaaggccgcgttgctggcgtttttccataggctccgcccccctgacgagcatcacaaaaatcgacgctcaagtcagaggtggcgaaacccgacaggactataaagataccaggcgtttccccctggaagctccctcgtgcgctctcctgttccgaccctgccgcttaccggatacctgtccgcctttctcccttcgggaagcgtggcgctttctcatagctcacgctgtaggtatctcagttcggtgtaggtcgttcgctccaagctgggctgtgtgcacgaaccccccgttcagcccgaccgctgcgccttatccggtaactatcgtcttgagtccaacccggtaagacacgacttatcgccactggcagcagccactggtaacaggattagcagagcgaggtatgtaggcggtgctacagagttcttgaagtggtggcctaactacggctacactagaaggacagtatttggtatctgcgctctgctgaagccagttaccttcggaaaaagagttggtagctcttgatccggcaaacaaaccaccgctggtagcggtggtttttttgtttgcaagcagcagattacgcgcagaaaaaaaggatctcaagaagatcctttgatcttttctacggggtctgacgctcagtggaacgaaaactcacgttaagggattttggtcatgaacaataaaactgtctgcttacataaacagtaatacaaggggtgttatgagccatattcaacgggaaacgtcttgctctaggccgcgattaaattccaacatggatgctgatttatatgggtataaatgggctcgcgataatgtcgggcaatcaggtgcgacaatctatcgattgtatgggaagcccgatgcgccagagttgtttctgaaacatggcaaaggtagcgttgccaatgatgttacagatgagatggtcagactaaactggctgacggaatttatgcctcttccgaccatcaagcattttatccgtactcctgatgatgcatggttactcaccactgcgatccccgggaaaacagcattccaggtattagaagaatatcctgattcaggtgaaaatattgttgatgcgctggcagtgttcctgcgccggttgcattcgattcctgtttgtaattgtccttttaacagcgatcgcgtatttcgtctcgctcaggcgcaatcacgaatgaataacggtttggttgatgcgagtgattttgatgacgagcgtaatggctggcctgttgaacaagtctggaaagaaatgcataaacttttgccattctcaccggattcagtcgtcactcatggtgatttctcacttgataaccttatttttgacgaggggaaattaataggttgtattgatgttggacgagtcggaatcgcagaccgataccaggatcttgccatcctatggaactgcctcggtgagttttctccttcattacagaaacggctttttcaaaaatatggtattgataatcctgatatgaataaattgcagtttcatttgatgctcgatgagtttttctaagaattaattcatgagcggatacatatttgaatgtatttagaaaaataaacaaataggggttccgcgcacatttccccgaaaagtgccacctgaaattgtaaacgttaatattttgttaaaattcgcgttaaatttttgttaaatcagctcattttttaaccaataggccgaaatcggcaaaatccatataaatcaaaagaatagaccgagatagggttgagtgttgttccagtttggaacaagagtccactattaaagaacgtggactccaacgtcaaagggcgaaaaaccgtctatcagggcgatggcccactacgtgaaccatcaccctaatcaagttttttggggtcgaggtgccgtaaagcactaaatcggaaccctaaagggagcccccgatttagagcttgacggggaaagccggcgaacgtggcgagaaaggaagggaagaaagcgaaaggagcgggcgctagggcgctggcaagtgtagcggtcacgctgcgcgtaaccaccacacccgccgcgcttaatgcgccgctacagggcgcgtcccattcgcca// SEQ ID NO: 58

The MK6H-G2-SH3-G5-2X(TMP22-7Q) fusion construct (Table 4A) was made asfollows. A PCR fragment was amplified from strain 14066 harboring aplasmid encoding SH3 and MP22-7Q using the following two primers: GAGGAA TAA CAT ATG AAA CAT CAT CAT CAT CAT CAT GGT GGT AAA GTT TTT CGC GCACTT TAT ACC TTT (SEQ ID NO:51), which encodes lysine, the 6 histidinetag, the glycine-glycine linker, the first 9 amino acids of SH3 plus a15 nucleotides 5′ extension including an NdeI site and GTT ATT GCT CAGCGG TGG CA (SEQ ID NO:52), which encodes a 20 nucleotides universalreverse primer for the pAMG21 vector. The PCR product was cloned inpAMG21 vector using NdeI and EcoRI sites, and the sequenced wasconfirmed.

TABLE 4A Amino acid sequence of MK6H-G2-SH3-G5-2X(TMP22-7Q).MKHHHHHHGGKVFRALYTFEPRTPDELYFEEGDIIYITDMSDTNWWKGTSKGRGLIPSNYVAEQGGSGGQGCSSGGPTLREWQQCRRMQHSGGGGGGGGQGCSSGGPTLREWQQCRRMQHSGG//SEQ ID NO: 86

The MK6H-G2-PDZ-G5-2×(TMP22-7Q) fusion construct (Table 4B) was made asfollows. A PCR fragment was amplified from strain 14175 harboring aplasmid encoding PDZ and TMP22-7Q using the following two primers: AGGAA TAA CAT ATG AAA CAT CAT CAT CAT CAT CAT GGT GGT CCG GGC GAA GTT CGTCTT GTT AGT (SEQ ID NO:53), which encodes lysine, the 6 histidine tag,the glycine-glycine linker, the first 8 amino acids of PDZ plus a 15nucleotides 5′ extension including an NdeI site and GTT ATT GCT CAG CGGTGG CA (SEQ ID NO:54), which encodes a 20 nucleotides universal reverseprimer for the pAMG21 vector. The PCR product was cloned in pAMG21vector using NdeI and EcoRI sites, and the sequenced was confirmed.

TABLE 4B Amino acid sequence of MK6H-G2-PDZ-G5-2X(TMP22-7Q).MKHHHHHHGGPGEVRLVSLRRAKAHEGLGFSIRGGSEHGVGIYVSLVEPGSLAEKEGLRVGDQILRVNDKSLARVTHAEAVKALKGSKKLVLSVYSAGRIPGGSGGQGCSSGGPTLREWQQCRRMQHSGGGGGGGGQGCSSGGPTLREWQQCRRMQHSGG// SEQ ID NO: 87

The MK6H-G2-Fn3-G5-2×(TMP22-7Q) fusion construct (Table 4C) was made asfollows. A PCR fragment was amplified from strain 14176 harboring aplasmid encoding Fn3 and TMP22-7Q using the following two primers: GAGGAA TAA CAT ATG AAA CAT CAT CAT CAT CAT CAT GGT GGT ACC GTA AGC GAT GTACCA CGC GAT (SEQ ID NO:55), which encodes lysine, the 6 histidine tag,the glycine-glycine linker, the first 8 amino acids of Fn3 plus a 15nucleotides 5′ extension including an NdeI site and GTT ATT GCT CAG CGGTGG CA (SEQ ID NO:56), which encodes a 20 nucleotides universal reverseprimer for the pAMG21 vector. The PCR product was cloned in pAMG21vector using NdeI and EcoRI sites, and the sequenced was confirmed.

TABLE 4C Amino acid sequence of MK6H-G2-Fn3-G5-2X(TMP22-7Q).MKHHHHHHGGTVSDVPRDLEVVAATPTSLLISWDAPAVTVRYYRITYGETGGNSPVQEFTVPGSKSTATISGLKPGVDYTITVYAVTGRGDSPASSKPISINYRTEGGSGGQGCSSGGPTLREWQQCRRMQHSGGGGGGGGQGCSSGGPTLREWQQCRRMQHSGG// SEQ ID NO: 88

Protein Expression.

All the pAMG21 constructs were transformed into competent E. coli GM221cells for expression (GM221 was derived from the K12 strain).Transformants were grown overnight (o/n) in TB media (1.2% Tryptone,2.4% yeast extract, 0.4% glycerol, 72 mM K₂HPO₄, and 17 mM KH₂PO₄)supplemented with 40 μg/mL kanamycin. This o/n culture was diluted 1:100into fresh media the following morning. The cells were then grown to anoptical density (OD) at 600 nm of 0.4-0.6. Expression commenced uponaddition of N-(3-oxo-hexanoyl) homoserine lactone (HSL) at a finalconcentration of 50 μg/mL. Harvesting by centrifugation was done 3 to 4hours later. Expression levels were visualized and evaluated byCoomassie gel (see FIGS. 4A-B and Table 5).

All the expression testing of the TMP fusion constructs was done with 5ml test tubes using terrific broth. Cells were induced at 37° C. withN-(3-oxo-hexanoyl) homoserine lactone(HSL) for 6 hours. Whole cellextracts, soluble and insoluble fractions were analyzed using a 4-20%Tris-Glycine gel. The MK6H-G2-SH3-G5-2×(TMP22-7Q) construct showed goodexpression with about 25% of the recombinant protein insoluble and mostof the soluble fraction is in the lower band (FIG. 5A-B). TheMK6H-G2-PDZ-G5-2×(TMP22-7Q) construct showed very good expression withapproximately 50% of the recombinant protein in the insoluble fractionand 50% of the recombinant protein in the soluble fraction. TheMK6H-G2-Fn3-G5-2×(TMP22-7Q) also expressed well with about 15% of therecombinant protein in the insoluble fraction and the remainder in thesoluble fraction.

TABLE 5 Relative expression levels of various ShK (actually[desArg1]ShK) fusion and OSK1 fusion constructs: “+/−” means a faintband was observed; “+” represents a weak band indicating definite lowlevel expression of the recombinant fusion protein; “++” represents amoderately strong band indicating strong expression of the recombinantfusion protein; “+++” represents a strong band indicating high levelexpression of the recombinant fusion protein. The word “clipped” in thetable refers to bands that ran significantly below their calculatedmass; in some cases, two bands were apparent—one expected to be thefull-length and another smaller product, for which protease-mediatedclipping of the recombinant fusion protein is the most likelyexplanation. pAMG21 pET30 M—G₂—H₆—G₃—10^(th)Fn3—(G₄S)₂—OsK1 +++ NAM—G₂—H₆—G₃—PDZ(1N7F)—(G₄S)₂—OsK1 ++ NA M—G₂—H₆—G₃—PDZ(1UEZ)—(G₄S)₂—OsK1+++ NA M—G₂—H₆—G₃—PDZ(1WFV)—(G₄S)₂—OsK1 + NAM—G₂—H₆—G₃—SH2(1AB2)—(G₄S)₂—OsK1 ++ NA M—G₂—H₆—G₃—SH2(1JYQ)—(G₄S)₂—OsK1+/− NA M—G₂—H₆—G₃—SH3(1PHT)—(G₄S)₂—OsK1 ++ NAM—G₂—H₆—G₃—SH3(1WA7)—(G₄S)₂—OSK1^(b) ++ clipped NAM—G₂—H₆—G₃—SH3(1X2K)—(G₄S)₂—OsK1 +++ NA M—G₂—H₆—G₃—CH2—(G₄S)₂—OsK1 +++NA M—G₂—H₆—G₃—10^(th)Fn3—(G₄S)₂—ShK +/− NAM—G₂—H₆—G₃—PDZ(1N7F)—(G₄S)₂—ShK + ++ M—G₂—H₆—G₃—PDZ(1UEZ)—(G₄S)₂—ShK +/−++ M—G₂—H₆—G₃—PDZ(1WFV)—(G₄S)₂—ShK +/− NAM—G₂—H₆—G₃—SH2(1AB2)—(G₄S)₂—ShK +/− NA M—G₂—H₆—G₃—SH2(1JYQ)—(G₄S)₂—ShK+/− NA M—G₂—H₆—G₃—SH3(1PHT)—(G₄S)₂—ShK +/− NAM—G₂—H₆—G₃—SH3(1WA7)—(G₄S)₂—ShK +/− clipped + clippedM—G₂—H₆—G₃—SH3(1X2K)v(G₄S)₂—ShK +/− ++ M—G₂—H₆—G₃—CH2—G₄S)₂—ShK ++ NA

Protein Purification.

Inclusion bodies were prepared by thawing frozen cell paste in 5 timesthe pellet mass (defined as 1 volume assuming 1 g=1 mL) of roomtemperature 50 mM tris HCl pH 8.0, 5 mM EDTA with approximately 0.1mg/ml hen egg white lysozyme using a tissue grinder. The suspension wasthen passed through a microfluidizer twice at about 12,000 PSI todisrupt the cells. The homogenized suspension was then centrifuged at11,300 g for 50 min at 4° C. and the supernatant was discarded. Thepellet was resuspended in ½ volume of 1% deoxycholic acid using a tissuegrinder and centrifuged at 15,300 g for 40 min at 4° C. discarding thesupernatant. The pellet was then resuspended in ½ volume of water usinga tissue grinder and centrifuged at 15,300 g for 40 min at 4° C.discarding the supernatant. The lysate and wash fractions were evaluatedby SDS-PAGE (FIG. 6A-E).

The insoluble proteins were then subjected to protein refolding by firstdissolving the washed inclusion bodies at a ratio of 9 ml of 8 Mguanidine HCl with 50 mM tris pH 8.0 per gram of pellet mass using atissue grinder followed by reduction using 10 mM DTT with gentleagitation for 30 min at room temperature. The refolding was theninitiated by slowly adding 1 part by volume of the reduced denaturedprotein solution to 100 parts by volume of the refolding buffer cocktail(1 M urea, 50 mM ethanolamine, 160 mM arginine HCl, 5 mM EDTA, 0.02%NaN₃, pH 9.8, 4 mM cysteine, and 1.2 mM cystamine HCl) at 4° C. Therefolding mixture was then incubated at 4° C. with gentle stirringtypically from 2 to 4 days.

Purification of the refolding cocktail was then conducted by firstfiltering the refold mixture through a 0.45 μm cellulose acetate filter.The filtered solution was then concentrated and buffer exchanged using aPall Omega 3 kDa UF/DF membrane and Ni-Buffer

A (50 mM NaH₂PO₄, 300 mM NaCl, pH 7.5). After removing the retentate,the apparatus was flushed with Ni-Buffer A and combined this with theretentate, which was then filtered through a 0.45 μm cellulose acetatefilter. The 1PHT and lAB2 constructs were refolded in the absence ofEDTA, hence, the diafiltration step was bypassed for these constructs.To the buffer exchanged material, 1/100 of a volume of 500 mM imidizolewas added, then the protein was applied to a Qiagen Ni-NTA Superflowcolumn in Ni-Buffer A at about 13° C. The column was washed with severalcolumn volumes of Ni-Buffer A followed by 8% Ni-Buffer B (250 mMImidazole, 50 mM NaH₂PO₄, 300 mM NaCl, pH 7.5). The protein was elutedwith 60% Ni-Buffer B. The eluted protein was then dialyzed against 10 mMNaH₂PO₄, pH 7.1 over night at 7° C. using a Pierce Slide-A-Lyzer with a3.5 kDa membrane. The protein was further purified by loading on to a GEHiTrap SP—HP column in S-Buffer A (10 mM NaH₂PO₄, pH 7.1) at about 13°C. The column was washed with several column volumes of S-Buffer A, theneluted with a linear gradient to 60% S-Buffer B (1 M NaCl, 10 mMNaH₂PO₄, pH 7.1). The fractions were pooled based on SDS-PAGE analysisand concentrated to 2.47 to 5.44 mg/ml using a Pall Macrosep with a 3kDa membrane at 4° C. The final product was then filtered through a 0.22μm cellulose acetate filter.

The concentration of the products was then analyzed by conducting aspectral scan from 250 to 340 nm, and concentrations were calculatedusing the molecular masses and extinction coefficients at 280 nm listedin Table 6 below. The pyrogen content was then determined using theCharles River Laboratories cartridge (0.05-5 EU/ml sensitivity) pyrogenassay diluting the samples to read between 1 and 100 EU/mg. Theaggregation state was determined by injecting the protein solution on toa Phenomenex SEC 3000 column (7.8×300 mm) in SEC-Buffer (50 mM NaH₂PO₄pH 6.9, 250 mM NaCl) at 1 ml/min observing the absorbance at 280 nm(FIG. 7A-F). The purity of the proteins was assessed using a 1.0 mm4-12% BisTris NuPAGE gel developing at 200V for 30 min in MES SDSrunning buffer and non-reducing NuPAGE loading buffer. The gels werestained with Boston Biologicals QuickBlue stain (FIG. 8A-C). Themolecular mass of the products was verified using mass spectroscopy(FIG. 9A-E).

TABLE 6 Product concentrations of OSK1 fusion proteins. ε MWConcentration Construct (M⁻¹ cm⁻¹) (Daltons) (mg/ml) CH2 17,460 17,3733.35 SEQ ID NO: 80 FnIII 14,090 16,099 2.47 SEQ ID NO: 81 1X2K 17,22012,382 5.44 SEQ ID NO: 84 1UEZ 3,280 15,574 2.70 SEQ ID NO: 85 1N7F3,280 16,148 4.01 SEQ ID NO: 83 1PHT 15,390 15,324 3.90 SEQ ID NO: 82

Bioactivity Assay.

To determine the activity of the purified OsK1 fusions, test sampleswere serially diluted 1:3 eight times in 0.3% bovine serum albumin inPBS, with Ca²⁺ and Mg²⁺. CHO cells stably expressing thevoltage-activated K⁺ channel, K_(v)1.3, were plated in T-175 tissueculture flasks (at a density of 5×10⁶) 2 days before experimentation andallowed to grow to around 95% confluence. Immediately prior to theexperiment, the cells were washed with PBS and then detached with amixture (2 ml) of trypsin (0.25%) and Versene (1:5000) (1:1 volumeratio) at 37° C. (for 3 minutes). Subsequently, the cells werere-suspended in the flask in 10 ml of tissue culture medium (HAM's F-12with Glutamax, InVitrogen, #31765) with 10% FBS, 1×NEAA and 750 μg/ml ofG418) and centrifuged at 1000 rpm for 1.5 minutes. The resultant cellpellet was re-suspended in PBS at 3−5×10⁶ cells/ml. The ability of thepeptides to inhibit K⁺ currents in the CHO-K_(v)1.3 cells wasinvestigated using the automated electrophysiology system IonWorksQuattro. Re-suspended cells, the assay plate, a population patch clamp(PPC) patch plate as well as appropriate intracellular (90 mMK-Gluconate, 20 mM KF, 2 mM NaCl, 1 mM MgCl₂, 10 mM EGTA, 10 mM HEPES,pH 7.35) and extracellular (PBS, with Ca²⁺ and Mg²⁺) buffers and werepositioned on the IonWorks Quattro. Electrophysiology recordings weremade from the CHO-K_(v)1.3 cells using an amphotericin-based perforatedpatch-clamp method. Using the voltage-clamp circuitry of the IonWorksQuattro, cells were held at a membrane potential of −80 mV andvoltage-activated K⁺ currents were evoked by stepping the membranepotential to +30 mV for 400 ms. K⁺ currents were evoked under controlconditions (i.e. in the absence of inhibitor at the beginning of theexperiment) and after a 10-15 minute incubation in the presence of thetest solution. The mean K⁺ current amplitude was measured between 430and 440 ms. The amplitude of the K⁺ current in the presence of eachconcentration of the test samples was expressed as a percentage of theK⁺ current in control conditions in the same well. The data were thenplotted as a function of peptide concentration in the test solution andthe IC₅₀ value was estimated using the following logistic equation:(Y=A+((B-A)/(1+((X/C)^(D)))), where A is min, B is max, C is IC50, D isslope, X is concn range, Y is POC range.

Example 2 PEGylation of Fusion Proteins

Six different OSK1 fusion proteins (SEQ ID NOS:80-85) were PEGylatedwith 20 kDa methoxy-PEG-aldehyde by reductive alkylation of theirreactive amino groups similar to methods previously described inKinstler et al., N-terminally chemically modified protein compositionsand methods, U.S. Pat. No. 5,824,784. Briefly, the purified fusionproteins were diluted to 2 mg/ml in 50 mM NaOAc, pH 5.0 to which 20 kDamethoxy-PEG-propionaldehyde

(Nektar, Huntsville, Ala.) was added in a 2-fold molar excess, followedby a sufficient volume of 1 M sodium cyanoborohydride to result in afinal concentration of 10 mM. The reaction was sealed and mixed gentlyovernight at 4° C. Upon completion of the reaction period, the reactionswere quenched by 4-fold dilution with 20 mM NaOAc, pH 4.0.

The mono-substituted PEG conjugates were purified from thepoly-substituted conjugates and un-reacted fusion proteins bypreparative FPLC (Akta, GE Healthcare, Piscataway, N.J.) using 5 ml SPSepharose HP HiTrap columns in a 10 mM NaOAc, pH 4 buffer and elutedwith a linear 0-0.5 M NaCl gradient over 25 column volumes. FIG. 10shows a chromatogram from the purification of 20 kDa mPEG-1UEZ-OSK1 andis representative of the other purifications. Eluted peak fractions wereevaluated by SDS-PAGE to identify fractions containing mono-substitutedPEG-conjugates. These were pooled, concentrated and dialyzed into PBS.The final purified pools were characterized by SDS-PAGE (FIGS. 11A-B)and submitted for further analyses.

Whole Blood Activity Assay.

For the in vitro whole blood activity assay of the compounds afterPEGylation, the compounds were serially diluted 1:3 in DMSO (Sigma#D2650) and then diluted into Assay Medium (Iscoves DMEM (Gibco#2440-053)+0.1% Human Albumin (Human Serum Albumin 25% USP, Gemini#800-120)+1×Pen/Strep/Glu (Gibco #10378-016)+55 μM 2-mercaptoethanol(Gibco #21985-023)) to 4 times the working concentration inpolypropylene 96 well plates (Corning #3365 or #3957). Samples wereserially diluted 1:3 into Assay Medium to 4 times the workingconcentration.

Fifty microliters of samples were added to each well of 96 well flatbottom tissue culture plates (Falcon #35-3072). One hundred 1 μl ofheparinized human whole blood from healthy, non-medicated donors wasthen added. The plates were incubated for 1 hour at 37° C. Afterincubation, 50 μl per well of either 40 uM thapsigargin (Alomone Labs#T-650) for a final concentration of 10 μM or assay media (negativecontrol) was added and plates were incubated at 37° C. for 48 hours. Onehundred ₁ μl of the supernatant was then collected into round bottompolypropylene 96 well plates (Corning #3355) and either analyzedimmediately or stored at −80° C.

Cytokines (human IL-2 and human IFN-γ) were measured on MSD MS6000 4Spot Plates (#N41IB-1) per the manufacturer's recommendation. In brief,20 μl of supernatant was added per well to MSD plates followed by 130 μlper well of detection antibody cocktail. The plate was then sealed andshaken in the dark at room temperature overnight. Plates were read thefollowing morning on an MSD Sector HTS instrument (Meso ScaleDiscoveries, Gaithersburg, Md.). Data were then analyzed and IC₅₀ valuesgenerated using Activityl)ase and Xlfit programs (IDBS, Guildford, UK).(Table 7 below).

TABLE 7 Bioactivity of PEGylated OSK1 fusion proteins. IL-2 IC50 IL-2IC50 IFN-γ IC50 IFN-γ IC50 PEGylated Donor 1 Donor 2 Donor 1 Donor 2Construct (μM) (μM) (μM) (μM) CH2 0.007429 0.00922 0.088987 0.0113 SEQID NO: 80 FnIII 0.018726 0.03476 0.037399 0.003634 SEQ ID NO: 81 1X2K0.007057 0.020087 0.011178 0.013763 SEQ ID NO: 84 1UEZ 0.00533 >0.1000000.004107 0.014324 SEQ ID NO: 85 1N7F 0.0332770.079462 >0.100000 >0.033333 SEQ ID NO: 83 1PHT0.017752 >0.100000 >0.100000 >0.100000 SEQ ID NO: 82

Phamacokinetics of Fusion Proteins.

The Swiss Webster mice used to determine the pharmacokinetic propertiesof the fusions were obtained from Taconic Inc. (nomenclature: Tac:SW).The mice were 8-10 weeks of age at the time of dosing and the averageweight was 31 grams. The mice were maintained in groups of 5 in staticfilter top cages on Sani-Chip (Harlan-Teklad, Inc.) bedding. The micewere provided with irradiated rodent chow (Harlan-Teklad rodent diet2919) and reverse osmosis water, ad libitum. The mice were maintained ina facility that is AAALAC accredited. Environmental conditions andsanitation practices meet or exceed standards set by the Guide for theCare and Use of Laboratory animals. The mice were exposed to a 12 hourlight, 12 hour dark light cycle (6:30 AM-6:30 PM). The total volumeinjected per mouse was 150 μl at 2 mg/kg, intravenous. The animals wereeuthanized (CO₂ gas inhalation) 24 hours after injection with the testcompounds, and blood was collected by cardiac puncture. The blood wasplaced in serum separator tubes (B.D.). The levels of the fusionproteins was determined by the whole blood activity assay describedabove (FIG. 12).

Example 3 Villin Headpiece Protein Fusions and PEGylation

In another embodiment of the present invention a small protein domainwas selected that is an autonomously folding protein fragment fromvillin, which has an unusually thermostable structure and contains nocysteine. Several internal sites suitable for mutation to cysteine havebeen identified that allow PEGylation while not interfering with peptidefusions at either the N- or C-terminus of the small pharmacologicallyinactive protein domain. Provided herein is an example that the villinheadpiece fusion platform permits recombinant expression of small,therapeutic peptides while allowing, optionally, facile PEGylation forenhanced pharmacokinetic properties.

Villin is a large (92.5 kDa) actin-binding protein involved in themaintenance and organization of actin filaments and implicated in theformation of microvilli in absorptive tissues. The protein is broadlyexpressed in a variety of tissues and the human sequence has beendetermined. (Arpin, M., et al., Sequence of human villin: A largeduplicated domain homologous with other actin-severing proteins and aunique small carboxy-terminal domain related to villin specificity. J.Cell Biol., (1988). 107: p. 1759-1766). Villin activity is sharedbetween two domains, a large core domain (84 kDa) and a much smaller,C-terminal domain (8 kDa) called the “headpiece”. Both domains containindependent actin binding sites. An NMR structure of the villinheadpiece domain has been determined and the actin-binding site andunique structural features mapped by cysteine scanning mutagenesis.(Vardar, D., et al., NMR structure of an F-actin-binding “headpiece”motif from villin. J. Mol. Biol., (1999). 294: p. 1299-1310; Doering, D.S. and P. T. Matsudaira, Cysteine scanning mutagenesis at 40 of 76positions in villin headpiece maps the F-actin binding site andstructural features of the domain. Biochemistry, (1996). 35: p.12677-12685). These studies of the villin headpiece have lead to theidentification of a headpiece subdomain called “HP-35” and consisting ofthe last 35 amino acids of the headpiece. The HP-35 polypeptide containsno cysteine and was readily expressed in E. coli independent of theremaining headpiece sequence. This fragment was found to foldautonomously into a stable, monomeric and well-organized structure.(McKnight, C. J., et al., A thermostable 35-residue subdomain withinvillin headpiece, J. Mol. Biol., (1996). 260: p. 126-134). HP-35 appearsto be unique as the smallest known polypeptide with no disulphide bonds,which demonstrates reversible unfolding with unusually highthermostability (T_(m)=70° C.) and resistance to guanidine-HCldenaturation (>4 M GuHCl). Although the HP-35 subdomain contains some ofthe actin-binding site found in the headpiece domain, HP-35 does notbind actin. (See, Luna, E. J., et al., Actin-binding polypeptides andnucleic acids encoding the same., U.S. Pat. No. 5,985,608, (1999)).There has also been an NMR structure determined for HP-35 whichindicates a very stable, well packed three-helix structure nearlyidentical to the equivalent sequence in the intact headpiece structure.(McKnight, J. C., P. T. Matsudaira, and P. S. Kim, NMR structure of the35-residue villin headpiece subdomain. Nature Structural Biology,(1997). 4: p. 180-184). These studies conclude that most of thestructural stability of the headpiece domain is derived from the HP-35subdomain. Similarly, the larger extended villin headpiece domainconsisting of the last 76 amino acids called HP-76 was alsocharacterized as a fusion partner.

In order to facilitate subsequent PEGylation of the HP35- , orHP76-peptide fusion proteins three different positions for singlecysteine substitutions were tested: T48C, A56C or N68C. These mutationsites are located on the solvent exposed surface of each of the threehelices and are sufficiently distal to the polypeptide termini tominimize interference with the therapeutic peptide fusion partner oncePEGylated. Each of these cysteine mutations has been shown to bewell-tolerated and solvent exposed in expressed headpiece mutants.(Doering, D. S. and P. T. Matsudaira, Cysteine scanning mutagenesis at40 of 76 positions in villin headpiece maps the F-actin binding site andstructural features of the domain. Biochemistry, (1996). 35: p.12677-12685). In fact, cysteine at position 68 was found to bestabilizing and increased the thermal stability of headpiece by 8° C.Although most of the HP-35 studies have been done with the chickensequence, there is substantial homology with the equivalent humansequence (FIG. 13). The suggested cysteine mutation sites for the humansequence are conserved if not identical between the two species.

PTH-HP76 Fusion Protein.

In one embodiment of the inventive recombinant fusion protein,parathyroid hormone (PTH) was fused to the villin headpiece domain HP76using conventional molecular biology techniques resulting in apolypeptide of the following sequence:

SEQ ID NO: 59 SVSEIQLMHN LGKHLNSMER VEWLRKKLQD VHNFGGGGGVFNANSNLSSG PLPIFPLEQL VNKPVEELPE GVDPSRKEEH LSIEDFTQAF GMTPAAFSAL PRWKQQC LKK EKGLFHHHHH H//.

In this construct, the therapeutic peptide PTH represents the first 34amino acids, the next 5 glycine residues represent a linker, followed bythe 76 amino acids of the HP76 domain which includes the N68C mutation(underlined cysteine residue in SEQ ID NO:59) for conjugation to PEG anda six-histidine extension to facilitate IMAC purification.

Expressed in E. coli, the PTH-HP76 fusion was detected by western blotin both the soluble and insoluble fractions of the cell lysate. However,some degradation of the PTH-HP76 molecule was observed when the fusionprotein was isolated from the soluble fraction. In contrast, PTH-HP76isolated from the insoluble fraction appeared largely intact. Briefly,the cells were lysed, centrifuged and the insoluble pellet dissolved in8 M urea, 10 mM NaHPO4, 50 mM NaCl, 10 mM DTT, pH7.5 by stirring 30 min.at 4 degrees C.

The solubilized PTH-HP76 was clarified by centrifugation and thesupernatant diluted 1:4 with 6 M urea, 10 mM NaHPO4, 50 mM NaCl, 5 mM2-mercaptoethanol, 5 mM immidazole, pH7. The diluted fusion protein wasthen loaded to a Ni-NTA column (Qiagen, Germany) and eluted with alinear 5-245 mM immidazole gradient (FIG. 14). Peak fractions wereanalyzed by SDS-PAGE gels (FIG. 15) and those containing PTH-HP76pooled, concentrated and buffer exchanged into 50 mM NaHPO4, 5 mM EDTA,pH6.5.

The isolated PTH-HP76 fusion protein was then PEGylated by addition of30 k mPEG-maleimide (Nektar, Huntsville, Ala.) in a 1.5-fold molarexcess and allowed to react overnight at 4 degrees C. The conjugate wasthen purified by cation exchange chromatography (FIG. 16), analyzed bySDS-PAGE (FIG. 17), concentrated and dialyzed into PBS.

The PEG-PTH-HP76 was tested in a murine in vivo study measuring PTHinduced hypercalcimia comparing a PEGylated synthetic PTH conjugate(designated “c33”) and the E. coli derived PTH-HP76 and PEG-PTH-HP76(FIG. 18). In this study, groups of 5 BDF 1 mice (4 weeks old, male)were given a single subcutaneous dose of either 200 nmoles syntheticPEG-PTH, 58.6 nmoles E. coli-derived PTH-HP76 or 58.6 nmoles E.coli-derived PEG-PTH-HP76 and ionized calcium measurements were taken at0, 2, 6, 24, 48 and 72 hrs.

The data demonstrate that HP76 fusions with PTH enable expression oftherapeutic peptides in a prokaryotic microbial host cell andincorporation of cysteine at position 68 allows facile site-directedPEGylation. The resultant conjugate was active and potent in vivo. Thedata presented in this Example further demonstrate thatpharmacologically active peptides expressed as recombinant fusionproteins of the present invention can be optionally PEGylated anddemonstrate prolonged efficacious half-lives.

The foregoing being illustrative but not an exhaustive description ofthe embodiments of the present invention, the following claims arepresented.

We claim:
 1. A composition of matter comprising a recombinant fusionprotein, wherein said fusion protein comprises: (a) a pharmacologicallyinactive protein domain of human origin, wherein said pharmacologicallyinactive protein domain is a 10^(th) fibronectin III domain that (i) hasa mass of about 3 kDa to about 20 kDa, and (ii) characteristically formsprotein aggregates of less than about 10 percent of total mass ofprotein when suspended without other proteins in a pharmaceuticallyacceptable formulation buffer of interest; and (b) at least onepharmacologically active protein about 5 to about 80 amino acid residuesin length.
 2. The composition of matter of claim 1 of the formula(F¹)_(a)X² and multimers thereof, wherein: F¹ is a half-life extendingmoiety, and a is 0 or 1; X² is D-(L)_(c)-(P⁵)_(d)—(X³)_(e),(X⁴)_(f)—(P⁵)_(d)-(L)_(e)-D, or(X⁴)_(f)—(P⁵)_(d)-(L)_(e)-D-(L)_(g)-(P⁶)_(h)—(X³)_(i), wherein c and gare each independently 0 or 1, d and h are 1, and e, f, and i are eachindependently 0, 1, 2, 3, or 4; X³ is -(L)_(j)-(P⁷), j is 0 or 1; X⁴ is(P⁸)-(L)_(k)-, k is 0 or 1; D is the pharmacologically inactive proteindomain of human origin, wherein the pharmacologically inactive proteindomain is a 10^(th) fibronectin III domain; P⁵, P⁶, P⁷ and P⁸ are eachindependently pharmacologically active proteins; and L is in eachinstance a peptidyl linker.
 3. The composition of matter of claim 1,wherein the pharmacologically inactive protein domain comprises an aminoacid sequence selected from SEQ ID NOS: 2, 13, and
 50. 4. Thecomposition of matter of claim 2, wherein a is 1, and F¹ is selectedfrom peptide ligands or small molecule ligands that have bindingaffinity for a long half-life plasma protein.
 5. A pharmaceuticalcomposition, comprising the composition of matter of claim 1 or claim 2,and a pharmaceutically acceptable carrier.
 6. A nucleic acid comprisinga polynucleotide sequence encoding a recombinant fusion proteincomprising: (a) a pharmacologically inactive protein domain of humanorigin, wherein said pharmacologically inactive protein domain is a10^(th) fibronectin III domain that (i) has a mass from about 3 kDa toabout 20 kDa, and (ii) characteristically forms protein aggregates ofless than about 10 percent of the total mass of protein when suspendedwithout other proteins in a pharmaceutically acceptable formulationbuffer of interest; and (b) a pharmacologically active protein of about5 to about 80 amino acid residues in length.
 7. The nucleic acid ofclaim 6, wherein the nucleic acid is a DNA.
 8. An expression vectorcomprising the nucleic acid of claim
 7. 9. A recombinant host cellcomprising the expression vector of claim
 8. 10. A method of producing apharmacologically active recombinant fusion protein, comprising: (a)placing the recombinant host cell of claim 9 in a growth medium, suchthat the recombinant fusion protein is expressed; and (b) isolating thefusion protein from the cell or growth medium.